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UNITED STATES
SECURITIES AND EXCHANGE COMMISSION
WASHINGTON, D.C. 20549
 
FORM 10-K

T
ANNUAL REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934
 
For the fiscal year ended December 31, 2009
 
or
 
£
TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934
 
For the transition period from ___________ to ___________
 
Commission file number 000-27765

SYMYX TECHNOLOGIES, INC.
(Exact name of registrant as specified in its charter)

 
Delaware
 
77-0397908
 
 
(State or other jurisdiction of
 
(IRS Employer
 
 
incorporation or organization)
 
Identification No.)
 
         
 
1263 East Arques Avenue
     
 
Sunnyvale, California
 
94085
 
 
(Address of principal executive offices)
 
(Zip Code)
 

Registrant's telephone number, including area code: (408) 764-2000

SECURITIES REGISTERED PURSUANT TO SECTION 12(b) OF THE ACT:
 
Title of each class:
Name of each exchange on which registered:
 
Common Stock, $0.001 Par Value
NASDAQ Global Select Market

SECURITIES REGISTERED PURSUANT TO SECTION 12(g) OF THE ACT:
Common Stock, $0.001 Par Value

Indicate by check mark if the registrant is a well-known seasoned issuer, as defined in Rule 405 of the Securities Act. oYes   xNo
 
Indicate by check mark if the registrant is not required to file reports pursuant to Section 13 or Section 15(d) of the Act. oYes   xNo

Indicate by check mark whether the registrant (1) has filed all reports required to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days. xYes oNo

Indicate by check mark whether the registrant has submitted electronically and posted on its corporate Web site, if any, every Interactive Data File required to be submitted and posted pursuant to Rule 405 of Regulation S-T during the preceding 12 months (or for such shorter period that the registrant was required to submit and post such files). Yes ¨  No ¨

Indicate by check mark if disclosure of delinquent filers pursuant to Item 405 of Regulation S-K is not contained herein, and will not be contained, to the best of registrant's knowledge, in definitive proxy or information statements incorporated by reference in Part III of this Form 10-K or any amendment to this Form 10-K. x
Indicate by check mark whether the registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer, or a smaller reporting company. See the definition of “large accelerated filer,” “accelerated filer” and “smaller reporting company” in Rule 12b-2 of the Exchange Act. (Check one).
 
Large accelerated filer       o
Accelerated filer x
 
Non-accelerated filer         o
Smaller Reporting Companyo
 
     (Do not check if a smaller reporting company)

Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Exchange Act). oYes ý No
 


 
 

 
 
The aggregate market value of the registrant’s common stock held by non-affiliates as of June 30, 2009 (the last business day of the registrant's most recently completed second fiscal quarter) was $102.5 million, based on the closing price for the common stock on the NASDAQ Global Select Market on such date. The determination of affiliate status for the purposes of this calculation is not necessarily a conclusive determination for other purposes. The calculation excludes approximately 16,578,000 shares held by directors, officers and stockholders whose ownership exceeded 5 percent of the registrant’s outstanding common stock as of June 30, 2009. Exclusion of these shares should not be construed to indicate that such person controls, is controlled by or is under common control with the registrant.

As of February 23, 2010, 34,692,061shares of the registrant’s common stock were outstanding.

DOCUMENTS INCORPORATED BY REFERENCE

Certain sections of the definitive proxy statement to be filed with the Securities and Exchange Commission not later than 120 days after the end of the fiscal year covered by this Annual Report on Form 10-K in connection with the registrant’s 2010 Annual Meeting of Stockholders are incorporated by reference into Items 10, 11, 12, 13 and 14 of Part III of this Annual Report on Form 10-K where indicated. Except with respect to the information specifically incorporated by reference in this Form 10-K, the registrant’s proxy statement is not deemed to be filed as part hereof.

 
 

 

TABLE OF CONTENTS


ITEM
     
PAGE
     
Part I
   
           
1.
  Business
1
 
1A.
  Risk Factors
12
 
1B.
  Unresolved Staff Comments
24
 
2.
  Properties
24
 
3.
  Legal Proceedings
24
 
4.
  Submission of Matters to a Vote of Security Holders
24
 
           
     
Part II
   
           
5.
  Market for Registrant’s Common Equity, Related Stockholder Matters and Issuer Purchases of Equity Securities
25
 
6.
  Selected Financial Data
27
 
7.
  Management’s Discussion and Analysis of Financial Condition and Results of Operations
29
 
7A.
  Quantitative and Qualitative Disclosures about Market Risk
45
 
8.
  Financial Statements and Supplementary Data
47
 
9.
  Changes in and Disagreements with Accountants on Accounting and Financial Disclosure
84
 
9A.
  Controls and Procedures
84
 
9A(T).
  Controls and Procedures
86
 
9B.
  Other Information
86
 
           
     
Part III
   
           
10.
  Directors, Executive Officers and Corporate Governance
87
 
11.
  Executive Compensation
87
 
12.
  Security Ownership of Certain Beneficial Owners and Management and Related Stockholder Matters
87
 
13.
  Certain Relationships and Related Transactions and Director Independence
88
 
14.
  Principal Accounting Fees and Services
88
 
           
     
Part IV
   
           
15.
  Exhibits, Financial Statement Schedules
89
 
           
           
  Signatures
90
 


PART I

ITEM 1.  BUSINESS

This discussion and other parts of this Annual Report on Form 10-K (Report), including the "Management’s Discussion and Analysis of Financial Condition and Results of Operations," contain forward-looking statements that involve risks and uncertainties within the meaning of Section 27A of the Securities Act of 1933, as amended, and Section 21E of the Securities Exchange Act of 1934, as amended. These statements typically may be identified by the use of forward-looking words or phrases such as "may," "will," "believe," "expect," "plan," "intend," "goal," "anticipate," "should," "planned," "estimated," "potential," and "continue," or the negatives thereof or other comparable terminology regarding beliefs, plans, expectations or intentions regarding the future. The cautionary statements made in this Report should be read as being applicable to all related forward-looking statements whenever they appear in this Report. Forward-looking statements include, without limitation, statements regarding: our intentions, beliefs and expectations regarding our future financial performance and operating results; anticipated trends in our business; the status of our collaborations with industry leaders; the impact of general economic trends on our business; our belief that our cash and cash equivalents will be sufficient to satisfy our anticipated cash requirements for at least the next twelve months; our expectations regarding our customers; our market penetration and expansion efforts; the potential impact and benefits of our technology on our customers and their research and development; our expectations regarding the development, effectiveness and acceptance of our technology; the expansion of our capabilities and our portfolio of intellectual property; the effect of our past acquisitions; our belief regarding the adequacy of our supply arrangements; our belief regarding employee relations; and our expectations regarding the likelihood of, and the effects of, the divestiture of our High Productivity Research business as described in this Report.

Among the factors that could cause actual results to differ materially are the factors detailed in Item 1A, "Risk Factors." Given these uncertainties, readers are cautioned not to place undue reliance on the forward-looking statements.

Any forward-looking statement speaks only as of the date on which it is made, and except as required by law, we undertake no obligation to update forward-looking statements to reflect events or circumstances occurring after the date of this Report. You should also consult the risk factors listed from time to time in Symyx’s quarterly reports on Form 10-Q and other Securities and Exchange Commission (SEC) filings.

General

Symyx Technologies, Inc. was incorporated in California on September 20, 1994 and reincorporated in Delaware in February 1999. Symyx’s headquarters are located at 1263 East Arques Avenue, Sunnyvale, California, 94085, and the telephone number at that location is (408) 764-2000. Our mailing address is 415 Oakmead Parkway, Sunnyvale, CA 94085. Our common stock trades on the NASDAQ Global Select Market under the symbol “SMMX.”

During fiscal 2009, Symyx enabled global leaders in life sciences, chemical, energy, and consumer and industrial products industries to optimize and accelerate their scientific research and development (R&D) through our expertise in two complementary business segments:  Symyx Software and Symyx High Productivity Research (HPR).

Symyx Software provides a suite of scientific software, content and technology, as well as associated professional services, to support R&D information lifecycle management across the enterprise, improving scientists’ ability to search, develop, manage, manipulate and store research data and to manage intellectual property. Symyx Software was the larger of our two business units in 2009, accounting for 59% of our 2009 revenue.

Symyx HPR provides various ways for customers to access our proprietary high-throughput technologies for parallel (versus serial) experimentation, enabling greater speed and breadth of research. Symyx HPR develops and applies high-throughput technologies that empower customers to engage in faster, broader experimentation by working with small amounts of materials in an automated fashion and utilizing parallel, or array-based, testing. Our customers can bring some of the capabilities of our laboratories into their own organizations by purchasing our tools and workflows to integrate and automate laboratory experimentation to increase research productivity. Customers can also leverage our expertise and infrastructure through the purchase of contract research services, with programs that range from directed research to strategic collaborative relationships. Symyx HPR accounted for 41% of our 2009 revenue.


In October 2009, we commenced a restructuring focused on Symyx HPR (the October 2009 Restructuring) to address underperformance in our contract development and manufacturing operations (CDMO) acquired as part of the Integrity Biosolution (IntegrityBio) acquisition in August 2008, and to address an anticipated decline in demand for research services following the end of 2009.  In the fourth quarter of 2009, we exited our CDMO business and began a process to reduce HPR staffing by approximately 75 employees, representing a 15% reduction in total Symyx headcount. We completed the majority of these restructuring actions by December 31, 2009, and will substantially complete the remaining balance of these actions in the first quarter of 2010.

On February 11, 2010, and following an extensive sales process led by our financial advisors, we announced the execution of a definitive agreement (Divestiture Agreement) pursuant to which Symyx will divest the assets of HPR’s tools operations and of certain of our recently restructured contract research services operations (the Divestiture) to a newly formed company, HPR Global, Inc. (HPR Global).  HPR’s president, John S. Senaldi, resigned from Symyx prior to the signing of the Divestiture Agreement to lead the acquisition of HPR assets as founder and chief executive officer of HPR Global.  Pursuant to the Divestiture Agreement, we will transfer to HPR Global substantially all existing HPR physical assets and certain intellectual property assets, including a portion of our patent portfolio and certain components of our Lab Execution and Analysis (LEA) software suite.  Symyx also expects to provide approximately $8.6 million of positive net working capital (mostly in cash) at closing.  In return, Symyx will receive a $10.0 million note and common stock representing an approximately 19.5% equity interest in HPR Global. Symyx will retain all existing rights to royalties and licensing fees previously included in HPR, as well as relevant patents underlying these entitlements.  Finally, we anticipate substantially all current HPR employees will be offered employment with HPR Global following the closing of the Divestiture.  Symyx expects to close the Divestiture by the end of March 2010, and to conclude certain remaining legacy chemical research services contracts by the end of the second quarter of 2010.  As a result of these actions, Symyx expects to conclude all of its HPR activities other than its ongoing license and royalty entitlements.

Symyx Software and Symyx HPR were both fully integrated into Symyx’s business in fiscal 2009.  The Divestiture has not closed as of the date of this Report, and will not close unless all of the conditions to closing are met or waived.  Accordingly, in most respects this Report presents Symyx’s 2009 fiscal year and related matters (including without limitation, the Risk Factors and Management Discussion and Analysis sections of this Report) without taking the Divestiture into account. However, where appropriate, we have provided commentary and forward-looking statements regarding the likely impact of the Divestiture on our business.

Industry Background

Materials and their diverse properties contribute in vital ways to many of the products in everyday use. These materials are discovered and evolve through advanced chemical R&D.  Most of the world’s largest companies in our target industries -- life sciences, chemical, energy and consumer and industrial products -- depend heavily upon these advancements. New drugs, cleaner and more efficient fuels, cheaper and stronger plastics, new and improved personal care products, as examples, share a common feature: they depend upon success in the chemical laboratories within an R&D organization.

Traditional materials research relies on an expensive, labor intensive and time-consuming process of trial and error.  However, by applying informatics (through the licensing of Symyx Software) and miniaturization, parallelization and automation (through the sale of Symyx HPR tools and research services) to research and development, we have helped transform our customers’ R&D operations, enabling them to advance their research and development faster and more cost effectively.
 

We primarily have served customers in two broad categories:

1)
Life Sciences

The life sciences industry is highly competitive and undergoing a major transformation, as pharmaceutical and biotechnology R&D organizations tackle issues such as the growing costs of drug development and marketing, more competition from generic drugs, scrutiny over healthcare and drug costs, patent expiration on leading products and product families, increased partnering and outsourcing and the need for more targeted therapeutics.

2)
Chemical, Energy and Consumer and Industrial Products

To compete effectively and efficiently on a global scale, chemical, energy and consumer and industrial products companies must execute and innovate faster than ever before. Meeting this imperative requires broader and more cost-effective experimentation, implementing quicker, more efficient product application testing, reducing raw materials costs, enhancing production yields, creating new product variants and improving manufacturing quality.

The market dynamics in these categories are changing product economics, especially with respect to time-to-market and prices, and in turn, mandating better information correlation across people, instruments and geographies, faster experimentation and lower costs.  Our offerings help customers meet these demands.

Symyx Solutions

Symyx Software

We have developed our software offerings through acquisitions and internally.  Most recently, in October 2007 we acquired MDL Information Systems, Inc. (MDL), a leading provider of scientific informatics software, databases and services.  We acquired IntelliChem, Inc. (IntelliChem) in November 2004, and Synthematix, Inc. (Synthematix) in April 2005; these two companies provided us our initial entry into the market for electronic lab notebook (ELN) applications. Internally, we have developed a number of solutions, including our Symyx Notebook enterprise ELN platform, leveraging much of the knowledge gained from our IntelliChem and Synthematix acquisitions, and our LEA software suite, which enables scientists to design experiments, execute those experiments on our automated workflows, and capture and analyze large quantities of multi-media data.

Today, Symyx Software encompasses:

Symyx Notebook Platform.  Symyx Notebook replaces paper notebooks traditionally used by scientists, providing a digital environment in which scientists can plan, execute, record, store, back up and share their daily research activities. Our enterprise ELN solutions have a consistent “back end,” our Vault platform described below, and we continue to develop domain-specific capabilities for scientists engaged in discovery, process, analytical, formulations and biology functions that are designed with their specific workflows in mind. We believe having the front-ends customized based on specific functions best meets the needs of scientists, while having those front-ends built on a common platform facilitates enterprise-wide adoption and use of Symyx Software, enabling optimal use of research data, improving data and documentation quality, and insuring adherence to standard operating procedures.

Symyx Isentris®.  Symyx Isentris is a comprehensive solution consisting of a number of industry-leading products, including:

(i)
Symyx Isentris Client for searching, browsing, collating and sharing scientific data in an efficient, time-saving manner that is integrated with workflows;
(ii)
Symyx Isentris for Excel® for accessing, browsing, collating, reporting, managing and sharing scientific data from a diverse range of public and proprietary data sources in the Microsoft Excel spreadsheet environment;
(iii)
Symyx Draw for quickly drawing precise chemical structures and reactions, and creating publication-quality graphics;


(iv)
Symyx Isentris Controls for accessing and leveraging the underlying functionality of Isentris with a set of .NET controls that can be used in Microsoft Visual Studio to build custom scientific applications rapidly, extend applications and integrate existing applications;
(v)
SymyxCheshire® for defining cheminformatic business rules for different applications to perform particular operations, such as chemical convention checks, chemical structure validation, and physico-chemical property calculations;
(vi)
Symyx Core Interface for accessing essential services for managing and supporting critical application workflows, building consistent, high-quality applications quickly, creating useful data views and finding information easier; and
(vii)
SymyxDirect for searching and registering molecules and reactions in Oracle® databases using a single, powerful chemistry data cartridge.

Vault Platform. Our ELN and LEA offerings all leverage our proprietary database solution, Vault Platform, which supports workflow, information access, security, signatures, document storage and access, and collaboration within regulated and non-regulated environments.

Content Databases. To support their research activities, scientists can access our comprehensive, integrated and cross-referenced collection of factual databases and reference works covering bioactivity, chemical sourcing, molecular properties, synthetic methodology, metabolism and toxicology information.  These vital research resources can be accessed easily through our Symyx Notebook and Isentris applications, or via the Internet through our Discovery Gate portal.

Lab Execution and Analysis. Our LEA applications enable scientists to control, monitor and manage the acquisition of large amounts of data from automated laboratory instruments, semi-automated instruments and manual instrumentation.  We developed LEA on a vendor-neutral architecture, so it can collect data from our instruments as well as from a broad range of third-party laboratory equipment resources, delivering highly flexible method development into the hands of scientists.

Our LEA software applications deliver real-time data warehousing, querying, visualization and reporting with unified and linked views across documents, chemical structures, multi-step synthesis and sample lifecycles.  Members of a team or an entire organization can utilize multiple query and browsing tools to simplify reporting or to search by document or chemical structure. With enterprise-level, worldwide scalability, our LEA software is designed to meet the needs of companies as they grow.

The principal components of our LEA suite are:

(i)
Library Studio: an intuitive, graphical environment that enables scientists to design complex libraries for a variety of applications, including polymer formulation, catalyst synthesis, pharmaceutical API salt selection and crystallization, and material synthesis;
(ii)
Automation Studio: a flexible environment that accelerates experimental workflows and improves R&D productivity by automating and controlling multiple laboratory instruments, and handling collection/storage, real-time data processing, data analysis, searching and reporting;
(iii)
Spectra Studio: consists of a suite of visualization and manipulation tools that allows users classify large sets of spectra automatically, to review the clustering results, manually manipulate group assignments and save the results for later retrieval and comparison with other experimental data;
(iv)
PolyView: a flexible and comprehensive search engine to retrieve data stored across synthesis and screening activities, enabling the user to view combinations of data from multi-step synthetic and analytical processes collected through the lifetime of the test sample; and
(v)
Data Loaders:  over 50 data loaders are available for processing output files from analytical instruments including NMS, FT-IRs and HPLCs, enabling the manual or automated import of data into the Symyx Vault data warehouse.
 
Upon the closing of the Divestiture Agreement referenced above, Symyx will transfer Library Studio and Automation Studio, which are central to HPR’s tools operations, to HPR Global.  In connection with that transfer, Symyx and HPR Global will enter into a commercial agreement pursuant to which the parties will cooperate on sales and support of LEA generally, grant certain cross-licenses, and provide for compensatory payments to the owner of individual LEA components where those components are included within LEA licenses by the other party to a customer.
 
 
Experimental Logistics. We offer the chemical presentation capabilities that customers have utilized for the past 27 years as well as systems that support laboratory operations and enhance laboratory productivity. These applications provide a framework for information exchange and laboratory workflow facilitation, and solutions for information management, work request handling, ordering, purchasing and sample management.

Software Services.  Symyx Software also offers customers a range of software integration and development services.

Customers of our software include life science, chemical and energy companies, as well as consumer and industrial products companies seeking to improve and integrate their research data management. Pharmaceutical and biotechnology companies use Symyx Software to support their pre-clinical research activities as well as some pharmaceutical discovery research and chemical research. Chemical, energy and other industrial companies use our software broadly across their research groups.

As discussed in the section entitled “General” above, we have entered into the Divestiture Agreement, which we expect to close in the first quarter of 2010.  We believe that the Divestiture will enhance Symyx’s ability to operate as a highly-focused, positive cash flow, software-only business, and to capitalize on our strategic growth opportunities.

Symyx HPR

The following summary relates to HPR’s business as conducted through the fourth quarter of 2009.

Introduction -- High-Throughput Technologies

Since its founding in 1994, Symyx has pioneered high-throughput R&D technologies with the goal of modernizing, automating and digitizing chemical/materials R&D. These advancements are the foundation of all Symyx HPR offerings, and certain of our Symyx Software offerings.

Our high-throughput research begins with the rapid creation of large, directed libraries of materials.  These materials are then synthesized and tested using high-throughput primary and secondary screens. During primary screening, we conduct experiments across broad material and processing parameters -- varying chemicals, mixtures, temperatures, pressures, etc. -- enabling researchers to quickly identify the smaller, more promising areas on which to focus. During secondary screening, we carry out further experiments to make a more detailed evaluation of the focused areas.

In conventional terms, creating and testing a single material is considered one experiment. Using our miniaturized, automated technology to execute hundreds to thousands of experiments at a time and our software applications to design, schedule, run, manage and share the data from those experiments, scientists can dramatically increase the probability of success and reduce the time and costs per experiment to discover new materials. For example, using traditional methods, a team consisting of a chemist plus a technician could perform 500 to 1,000 experiments per year. In our laboratories, that same team could perform 10 to 25 times of these same experiments at a vastly reduced cost per experiment. As a result, Symyx-enabled scientists can improve their productivity, generate significantly more data, increase the possibility of successful discoveries within a given timeframe and reduce associated program costs dramatically.

To achieve these efficiencies, we have developed extensive capabilities in materials synthesis, screening and data analysis. A particular challenge is the ability to screen materials for a wide range of properties. For example, to discover a new catalyst, we need to screen how well it performs a specific chemical reaction. To discover a new polymer, we need to screen for physical and mechanical properties such as molecular weight and toughness.

Our multi-disciplined team of people with expertise in the fields of inorganic, physical, polymer and organic chemistries, physics, engineering and software programming has successfully designed, built and validated a powerful array of highly specialized proprietary instruments and software. Our scientists can synthesize a wide range of materials and screen for properties including catalytic, chemical, physical, mechanical, electronic and optical properties. In addition, we continue to expand our capabilities through the development of new instruments and software and enhanced versions of existing systems.


Automated Tools

Symyx HPR designs, develops, manufactures and sells tools to life science companies to speed and improve preclinical testing of drug candidates; and to chemical, energy, and consumer and industrial products companies for materials discovery research, development and testing. Symyx HPR tools include high-throughput reactors, screening systems, robotics, powder-dispensing and analytical equipment. Our systems range from modular, configurable, increasingly standardized units that can be integrated as needed, up to very complex, multi-million- dollar custom systems designed specifically to meet a customer’s requirements.  By offering this range of systems, we give our customers the flexibility of purchasing complete systems, or purchasing individualized system components to build full high-throughput experimentation capability gradually with the assurance that they will be able to integrate the systems and data management of different research processes at any time.

Using Symyx HPR tools, our customers can implement our proven high-throughput technologies reliably, predictably and at significant time and cost savings compared to developing and building systems internally. Customers typically purchase Symyx HPR tools in either Benchtop System or Integrated Workflow configurations. The Benchtop System is a self-contained unit that automates multiple steps of experimental procedures and is scalable to enable data and instrument integration with other equipment in the laboratory. Integrated Workflows are validated, integrated systems that perform fully automated experimentation for complete laboratory processes and include integration with other laboratory equipment and software and the ability to support document browsing and searching, enterprise-level security and auditing, and configurable document workflow. Symyx HPR tools are used to help accelerate research, product optimization and process development, enabling scientists to significantly increase their research productivity.

The workflows we sell to life science companies include those for solubility, polymorph and salt selection, liquid formulations, forced degradation, excipient compatibility, organic synthesis, bio catalysis and process optimization. The workflows we sell to chemical companies include those for formulations, heterogeneous catalysis, homogeneous catalysis and polymerization catalysis. Consumer and industrial products companies utilize our HPR tools to design, formulate, and test the performance characteristics of materials. The workflows we sell to consumer products companies include those for additives, adhesives/coatings/sealants, consumer and personal care and plastics.

We assemble and ship HPR tools primarily from our facilities in California. As we assemble our systems, we generally manufacture only critical and proprietary components ourselves. We contract with others for the manufacture and supply of the majority of components. We believe our supply arrangements to be adequate. From time to time, we rely on a single supplier for all of our requirements of a particular component or raw material.

Research Services

Symyx HPR’s scientific teams perform research on behalf of customers, with a goal of producing breakthrough discoveries and at times developing new high-throughput technologies, which we then commercialize principally through Symyx HPR tools and services. These services have historically been provided in the context of an alliance or collaboration agreement under which we provide the platform technologies and effort, and our partners acquire rights to develop and commercialize resulting materials within their defined fields of license.  Under these broader arrangements, of which our agreements with ExxonMobil Corporation (ExxonMobil) and The Dow Chemical Company (Dow) are the most extensive examples, we receive research funding, and in some cases, rights to future royalties or other payments on materials we may discover once our partner commercializes those materials. Our research programs also contribute greatly toward the development of our intellectual property, instrumentation and software, as we typically own or control all inventions pertaining to high-throughput methodology conceived and reduced to practice in connection with activities under the agreements and all know-how and intellectual property rights related thereto.


We provide a variety of research services with flexible scope, including contract research services, collaborations and partnerships. We provide packaged service offerings where clients direct the experiment goals, providing the experiment design and data analysis. We provide the R&D execution, completing the experimentation by leveraging our proprietary infrastructure. In this scenario, pricing is typically based on the number of experiments and the customer owns rights to the intellectual property. Under collaborative research agreements, customers are also able to access the expertise of our scientists and technology development. Partnerships within Symyx HPR involve a shared risk model that leverages the resources of Symyx and the partner company in exchange for a higher share of the potential reward/outcome.

We typically bill our customers for services over the term of the research contract, which can vary from several months to several years. Due to the nature of our research and our dependence on our collaborative partners to commercialize the results of the research, we cannot predict with any certainty whether any particular collaboration or research effort will ultimately result in a commercial product or whether we will achieve future milestone or royalty payments under our various collaborations.

As part of the October 2009 Restructuring, we substantially reduced our research services offerings.

IP Licensing

We discover and patent a range of materials in our collaborations and internal research programs. These discovered materials provide us licensing opportunities, offer a path to commercialization of new materials, and demonstrate the capabilities of our high-throughput research technologies. In addition, we periodically enter into patent and other intellectual property licenses designed to provide selective access to our methodology patents, offering a constructive way to sustain the value of our intellectual property portfolio while expanding the ways in which we can work with potential customers.

As noted above, following the closing of the Divestiture, Symyx will retain all existing rights to royalties and licensing fees previously included in HPR, as well as relevant patents underlying these entitlements, but expect no further materials development after the closing.

Research and Development

Our overall R&D expenditures for 2009, 2008 and 2007, respectively, were $52.4 million, $75.4 million and $66.2 million. We do not track our fully burdened R&D costs by project. However, based on hours spent on each project, we estimate our R&D efforts were allocated as follows:

   
2009
   
2008
   
2007
 
Customer-sponsored projects
    28 %     37 %     55 %
Internally-funded projects
    72 %     63 %     45 %
Total
    100 %     100 %     100 %
 
 
Our overall R&D expenditures in dollar terms will be substantially reduced upon the closing of the Divestiture Agreement, but substantially all of the remaining expenditures will be internally-funded projects in support of our Symyx Software products.

Customers

We have a record of building enduring relationships with customers as they apply our various offerings in flexible ways to meet their needs. For some customers, we have performed research and share their successes through royalties on commercial discoveries.  For others, we have provided Symyx Software applications, HPR tools or HPR research services either alone or in combination.  Our goal in all accounts has been to provide a comprehensive set of solutions from each of our business areas.


The following table lists all of our major customers that contributed more than 10% of the total revenue in any of the fiscal years ended December 31, 2009, 2008 or 2007 (in thousands):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
ExxonMobil
  $ 13,747     $ 24,514     $ 36,489  
Dow
  $ 25,522       28,681       35,301  
Total
  $ 39,269     $ 53,195     $ 71,790  


The following table illustrates the revenue contributed by the above customers as a percentage of total revenue in the fiscal years ended December 31, 2009, 2008 and 2007:
 
 
2009
 
2008
 
2007
 
ExxonMobil
9%
 
15%
 
29%
 
Dow
17%
 
18%
 
28%
 
Total
26%
 
33%
 
57%
 
 
 
Under our April 1, 2003 alliance agreement with ExxonMobil, we provided research services in certain exclusive areas, developed and sold Symyx HPR tools and licensed Symyx Software and intellectual property.  The original five-year commitment under that agreement was approximately $200 million and expired on May 31, 2008.  We continue to be entitled to receive royalties from the commercialization of materials, processes and products based on discoveries made in other fields covered by the original alliance agreement (and would retain these rights following the Divestiture).

Under our January 1, 2005 alliance agreement with Dow, we contracted to perform research in a number of exclusive areas, develop and provide HPR tools, and license Symyx software and intellectual property. This alliance agreement expired on December 31, 2009 but continues to entitle us to receive royalties from the commercialization of materials, processes and products based on discoveries made in the fields covered by that agreement. Effective November 29, 2007, we executed a supplemental agreement with Dow which includes additional commitments to us of approximately $49.0 million for purchases of Symyx HPR tools and research services, establishes minimum royalties over the period 2008-2015, and reduces applicable royalty rates to encourage Dow’s full use and broad commercialization of technology developed under the original agreement.  Following the Divestiture, Symyx will retain these royalty rights; HPR Global would assume the tools and related development services aspects of our remaining agreements with Dow.

For the fiscal years ended December 31, 2009, 2008 and 2007, approximately 38%, 36%, and 12%, respectively, of our total revenue was generated from sales to customers located in foreign countries. See Note 6 of the Notes to Consolidated Financial Statements for further detail. We are exposed to risks associated with international operations. See “We are exposed to risks associated with export sales and international operations that may limit our ability to generate revenue from our products and intellectual property” under Item 1A, “Risk Factors.”
 
We provide in our financial statements the amount of total revenue contributed by the following classes of products and services accounting for more than 10% of consolidated revenue in the periods presented: (i) Service, (ii) Product Sales and (iii) License Fees, Content and Royalties.

Sales and Sales Support

Substantially all of our sales are direct, though we have non-exclusive distribution relationships in Europe, Australia, Japan, Korea and India.  As of December 31, 2009, our sales organization consisted of more than 50 employees in the United States, Europe and Japan, with Symyx Software and Symyx HPR each maintaining separate salesforces. We expect approximately 10 sales employees to join HPR Global upon closing of the Divestiture.

We believe service is an important component of the value we offer our customers. Although sales representatives have direct responsibility for account relationships, our sales support group works closely with our customers to maximize the value of our offerings. Our sales organization includes field application scientists who participate in the pre-sales effort to the customers’ R&D managers, technology support representatives and product managers to gather a better understanding of customers’ needs. Our sales organization also includes field service engineers dedicated to post-sales support, who train users at our facilities in California and at customer sites, assist with reassembly of certain instruments, install software for customers, and provide customizations requested by customers.


Intellectual Property and Other Proprietary Rights

Our success, particularly in our HPR business unit, has depended in large part upon our proprietary technology. The risks associated with patents and other intellectual property are more fully discussed in the “Risk Factors” section contained in Item 1A of this Annual Report on Form 10-K.

Our patent portfolio as of December 31, 2009 consisted of more than 350 issued patents, including approximately 300 in the United States and the balance in Europe and in Asia, with approximately 200 additional applications pending worldwide. These patents and applications cover composition of matter, instruments and methodology, and include issued patents with broad claims in high-throughput combinatorial methodologies, and software patents. We co-own with Lawrence Berkeley National Laboratory (LBNL), on behalf of The Regents of the University of California, 26 of the issued patents in the United States and other countries. We have an exclusive license to these patents and patent applications from Lawrence Berkeley National Laboratory, which was agreed to upon our formation. In addition to patents, we rely on copyright, trademark and trade secret rights, confidentiality procedures and licensing arrangements to establish and protect our proprietary rights. The earliest filed patents will begin to expire in 2014.

In connection with the divestiture, Symyx will retain ownership of its software patents and applications, of the patents co-owned with LBNL, and of other patents supporting Symyx’s existing licensing and royalty entitlements, but will transfer to HPR Global those remaining patents and applications it deems applicable to research and tools.

Markets

Our primary markets are life sciences, chemical, energy, and consumer and industrial products.  We provide software, and in 2009 also provided hardware and related services, that enable the R&D operations of companies in these industries to achieve breakthroughs in scientific R&D productivity and return on investment.  Global companies in life sciences, chemical, energy, and consumer and industrial products spent more than $100 billion on R&D in 2007.  While the economic downturn that commenced in the second half of 2008 materially and negatively affected R&D spending, and is likely to continue to do so in 2010, we believe companies will continue to invest in technology products and services to increase productivity.
 
Competition

Symyx Software competes in the research software market. In our assessment, the research software market is highly fragmented. In the area of electronic lab notebooks, or ELNs, Symyx Software competes primarily with CambridgeSoft, ChemAxon, IDBS and others.  We believe Symyx Software’s enterprise platform strategy and its long-standing relationships with key customers through its Isis/Isentris products meet the corporate interests of a single consistent platform, fewer, stronger vendors and a reputation for good customer support, while still offering domain specific workflows to meet the needs of individual scientists and chemists.  While we believe we are competitive on price and other business terms, because ELN adoption is in its early stages, to date we do not believe price is a primary driver.
 
Our Isis/Isentris platform competes with a number of smaller spot solution providers.  We believe the breadth of our Isis/Isentris platform, its extensive integration with other applications at most of our customers, and our continuing releases of additional functionality within our maintenance and support fee structure are competitive advantages.
 
Finally, our scientific content subscription products compete primarily with Elsevier, CAS and Thomson Reuters.  We believe our chemical sourcing content competes favorably due to the comprehensiveness of our databases in this area and the fact that our product sourcing reference numbering system has been widely adopted by our customers and vendors in the industry.  Regarding our other content subject areas, the market is highly competitive, with depth of information by area and price being key competitive factors.  Our competitive position varies by subject area and the specific needs of the account.
 
With respect to Symyx HPR, our tools compete with certain instrument manufacturers, including Chemspeed Technologies, Zinsser Analytic, Tecan Group Ltd. and others. We believe the modular design of our tools offerings, which allows customers to purchase an initial tool and then expand by adding additional Symyx and/or third-party instruments and relevant portions of LEA to create a complete, integrated workflow, enables us to compete favorably.  Because our HPR tools are semi-customized to customized to meet the needs of our customers, we compete on value rather than price.
 
In research services, we compete primarily with our customers’ in-house R&D efforts.
 

Financial Information about Geographic Areas

Revenue is attributed to the following geographic locations based on the physical location of our customers (as a percentage of total revenue in the respective periods):

   
2009
   
2008
   
2007
 
United States
    62 %     64 %     88 %
Europe
    27 %     26 %     9 %
Asia
    10 %     9 %     3 %
Rest of the World
    1 %     1 %     *  
Total
    100 %     100 %     100 %
* Less than 1%                        


The tables below show long-lived assets by location (in thousands):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
Long-lived assets in U.S.
  $ 101,238     $ 114,373     $ 195,246  
Long-lived assets in foreign countries
    13,156       14,076       33,207  
Total long-lived assets
  $ 114,394     $ 128,449     $ 228,453  


Backlog of Committed Revenue

As of December 31, 2009, our backlog was approximately $88.2 million, including approximately $24.9 million of customer commitments we intend to assign to HPR Global in connection with the Divestiture.  Our backlog at December 31, 2008 was approximately $100 million. Our backlog consists of contractual commitments from our customers for the next 12 months for products to be shipped, research, consulting and maintenance services to be provided, and license and content revenue to be recognized. The decrease in backlog from 2008 to 2009 is mainly due to lower research service commitments from our customers. Because of the occasional customer-driven changes in delivery schedules or cancellation of orders without significant penalty, we do not believe our backlog, as of any particular date, is necessarily indicative of actual revenue for any future period.
 
Seasonality

Our business is seasonal in a number of respects.  In Symyx Software, our renewals of maintenance and of our content subscriptions are heavily weighted towards the first half of the calendar year, with many domestic and European contracts having a start date at the beginning of the year, and many contracts in Asia beginning early in the second quarter.  Because revenue associated with these contracts is recognized ratably over their respective terms, the seasonal effect on our revenues is lessened, but significant cancellations would have the effect of creating a material revenue decline following these renewals seasons.  Further, due to the timing of these renewals, in Symyx Software we typically generate positive cash flow in the first two quarters of each calendar year and are neutral to negative in the second half of each year.

In Symyx HPR, our fourth quarter has historically been strongest for our tools operations in terms of both bookings and revenues due to our customers’ budgetary cycles, as our customers are either spending remaining capital budgets in the fourth quarter or planning significant capital expenditures for the following year.
 
Employees

As of December 31, 2009, we had approximately 460 employees, including approximately 300 scientific and technical employees and 160 employees in business development, sales, and general and administrative functions. Our total headcount decreased in 2009, primarily due to the reductions in force discussed in Note 13 of the Notes to Consolidated Financial Statements. We anticipate our headcount will continue to decrease in fiscal 2010 as we carry out the Divestiture. None of our employees is represented by a labor union, and we consider our employee relations to be good.


Executive Officers of the Registrant
 
Set forth below is information regarding our executive officers as of February 23, 2010:

 Name of Executive Officer
 
Age
 
Position with the Company
Isy Goldwasser (1)
 
40
 
Chief Executive Officer
Rex S. Jackson (2)
 
49
 
Executive Vice President and Chief Financial Officer
Trevor Heritage (3)
 
43
 
President, Symyx Software
Charles Haley (4)
 
40
 
Senior Vice President and General Counsel
Richard J. Rosenthal (5)
 
54
 
Senior Vice President of Finance and Principal Accounting Officer
 

(1) Mr. Goldwasser has been with Symyx since its founding in 1994, was appointed President and Chief Operating Officer in 1998, and was appointed Chief Executive Officer in June 2007. Mr. Goldwasser received a B.S. degree in chemical engineering from the Massachusetts Institute of Technology and an M.S. degree in chemical engineering from Stanford University.

(2) Mr. Jackson joined Symyx in February 2007 as Executive Vice President, General Counsel and Secretary.  In June 2007, Mr. Jackson assumed the role of interim Chief Financial Officer and in October 2007 was appointed Chief Financial Officer. Prior to joining Symyx, he served as Senior Vice President and General Counsel at Avago Technologies Ltd. from 2006 to 2007 and held multiple positions at Synopsys, Inc. from 2003 to 2006, most recently as Senior Vice President, General Counsel and acting Chief Financial Officer. Mr. Jackson was primarily responsible for the entire legal function at each of Avago Technologies and Synopsys. Mr. Jackson obtained a B.A. degree in political science from Duke University and a J.D. degree from Stanford University.

(3) Dr. Heritage was Senior Vice President and Chief Science Officer of MDL Information Systems, Inc. for three years prior to Symyx’s acquisition of MDL in October 2007 and was appointed President of Symyx Software effective June 1, 2008. Prior to joining MDL, Dr. Heritage was with Tripos, Inc., a discovery informatics company focused on the life sciences industry, from 1994 to 2005, most recently serving as senior vice president and general manager, Discovery Informatics, responsible for leading the product development. Dr. Heritage has a B.S. degree in chemistry and computer and a Ph.D. degree in organic chemistry from University of Reading, United Kingdom.
 
(4) Mr. Haley joined Symyx as Senior Vice President and General Counsel in September 2008.  Prior to Symyx, from October 2006 to September 2008, Mr. Haley served as Deputy General Counsel of BigBand Networks, Inc. (BigBand), a technology company serving the telecommunications and cable industries based in Redwood City, CA.  Prior to BigBand, Mr. Haley was an associate and then partner in the law firm of Tomlinson Zisko LLP, from June 2002 to September 2006.  Mr. Haley’s past experience was primarily in the area of legal functions. Mr. Haley holds a J.D. from the University of Virginia, School of Law, and a B.A., summa cum laude, from Princeton University in Near Eastern Studies.

(5) Mr. Rosenthal joined Symyx as Senior Vice President of Finance and Principal Accounting Officer in December 2007. Prior to Symyx, he was employed by LSI Corporation, a manufacturer of communications, consumer and storage semiconductors, from 1997 until December 2007, most recently serving as Vice President and Corporate Controller, responsible for accounting and business operations.  Mr. Rosenthal obtained a B.S. degree in accounting from San Jose State University and an M.B.A. from Santa Clara University.

There is no family relationship between any of the foregoing executive officers or between any of such executive officers and any of the members of our Board of Directors. Our executive officers serve at the Board’s discretion.

Environmental Matters

Symyx HPR involves the use of a broad range of hazardous chemicals and materials. Environmental laws impose stringent civil and criminal penalties for improper handling, disposal and storage of these materials. We have a number of programs underway to minimize our impact on the environment, such as ongoing safety trainings and lab owner program. These programs typically do not require material capital expenditures.  We believe we are in substantial compliance with applicable environmental laws and regulations. With the HPR Divestiture, we will focus on our software business and expects to substantially discontinue further use of hazardous chemicals and materials, reducing our exposure in environmental matters.
 

Company Website and Available Information

We are subject to the informational requirements of the Securities and Exchange Act of 1934, as amended. Therefore, we file periodic reports, proxy statements and other information with the SEC. Our website can be found at www.symyx.com and it contains information about Symyx, our products and services and our operations. Copies of our filings with the SEC on Forms 10-K, 10-Q and 8-K and all amendments to those reports can be viewed and downloaded free of charge at our website as soon as reasonably practicable after they are filed with the SEC.  Any materials we file with the SEC may be read at the SEC’s Public Reference Room at 100 F Street, NE, Washington, DC 20549. Anyone may obtain information on the operation of the Public Reference Room by calling the SEC at 1-800-SEC-0330. The SEC also maintains an Internet site that contains reports, proxy and information statements, and other information regarding issuers that file electronically with the SEC at http://www.sec.gov.

Our website also contains our Corporate Governance Guidelines, charter and membership of the Board’s Audit, Compensation and Nominating and Governance Committees, as well as our Code of Conduct and Ethics.

ITEM 1A. RISK FACTORS

In evaluating Symyx’s business, you should carefully consider the risks described below, as well as other information contained in this Report.  It should be noted Symyx Software and Symyx HPR were both fully integrated into Symyx’s business in fiscal 2009, and the Divestiture has not closed as of the date of this Report (and Symyx cannot guarantee it will close).   Accordingly, in most respects these Risk Factors are provided without taking the Divestiture into account.  In certain Risk Factors, Symyx describes likely changes in subsequent disclosures and effects on Symyx’s business, in the event that the Divestiture does close.  If any of those risks actually occurs, our business, financial condition and operating results could be harmed.  The risks and uncertainties listed are not the only risks and uncertainties facing Symyx.  Additional risks and uncertainties Symyx has not anticipated or are currently seen as immaterial also may materially and adversely impair our business operations.

We expect to be a smaller company in 2010, but may not be able to proportionately decrease our operating expenses, particularly as a public company, which may materially and adversely affect our cash flows and profitability.

As a result of our exiting the CDMO and research services business, and should we close the expected Divestiture, we will be a substantially smaller company in 2010.  However, we may not be able to decrease our expenses proportionately, as many expenses of operating, in particular as a public company, are independent of the size of the company, such as the costs of compliance with the Sarbanes-Oxley Act of 2002.  Consequently, we expect our public company operating expenses will comprise a greater percentage of our costs than previously, which will make it more challenging for us to be profitable.

The Divestiture poses significant operational and financial risks to Symyx that, if realized, could have a material adverse effect on our financial interests in the transaction and our customer relationships, which could in turn adversely affect our business, financial condition and results of operations.

We have undertaken a material level of business effort and cost to enter into the Definitive Agreement, and expect the Divestiture will close.  If the Divestiture fails to occur for any reason, Symyx Software and HPR customers could suffer material disruption.  If the Divestiture closes, Symyx will need to provide certain transition services on a cost plus basis, which could distract company personnel from other duties in support of Symyx Software.  Further, Symyx has no operational or other control over HPR Global and cannot guarantee that HPR Global management will successfully manage HPR Global going forward as necessary to insure Symyx will collect on the $10,000,000 note issuable in the Divestiture, will see appreciation in Symyx’s equity interest in HPR Global, and/or will suffer no adverse impact on customer relationships for Symyx Software.  Finally, we cannot predict the impact of the Divestiture on our stock price in the public markets.


We depend upon the research and development activities of companies in the life science, chemical, energy and consumer and industrial products industries, among others, and declines or reductions in the research and development activities of these industries could harm our business.

The market for our software, tools and research services within the life science, chemical, energy and consumer and industrial products industries depends on our customers’ ability and willingness to invest in research and development. If we cannot renew existing contracts or enter into new arrangements at the pace we expect, our business and operating results will be harmed.

In particular, many companies in the life science and chemical industries have, in the past several years, experienced declining profitability, and in many cases, losses, and this negative trend does not appear to have abated as of the date of this Report. There also has been considerable consolidation and restructuring among many companies in the life sciences industry. In addition, many chemical products have become commodity products that compete primarily on the basis of price. As a result, some life science and chemical companies have reduced their research and development activities and/or delayed investments in new technologies. If commoditization of chemical products and other pressures affecting the profitability of the industry, including governmental regulations and governmental spending, continue in the future, more companies could adopt strategies that involve significant reductions in their research and development programs. Although we believe our technologies can help life science, chemical, energy, and consumer and industrial products companies increase the efficiency of their research and development activities, our efforts to convince them of this value may be unsuccessful. To the extent these companies reduce their research and development activities or external investments, they may be less likely to do business with us. As a result of current industry consolidation, a number of our pharmaceutical companies have recently reduced or postponed decisions relative to research and development spending. Decisions by these companies to reduce or postpone their research and development activities could result in fewer or smaller scale collaborations with us, fewer or smaller scale intellectual property and software licenses, fewer sales of our tools, or choosing not to work with us, any of which could reduce our revenue and harm our business and operating results.

We depend on a number of key customers for a large portion of our revenues.  If we are unable to replace the expected decline in certain key customer contracts with new revenue, or if any of our other key customers eliminates or significantly reduces its business with us, our business, financial condition and results of operations would be adversely affected.

We have depended on a relatively small number of key customers for a large portion of our revenues, in particular with respect to our HPR business unit. The loss of any of our key customers or a material reduction in business from one or more of these customers would materially harm our business, financial condition and operating results. For example, our revenue from ExxonMobil and Dow declined from $71.8 million in 2007 to $53.2 million in 2008 and to $39.3 million in 2009, primarily due to the expiration of our alliance agreement with ExxonMobil in May 2008.  Our primary alliance agreement with Dow and certain research services extensions from ExxonMobil expired in December 2009.  These expirations were the primary drivers of our decision to execute the October 2009 Restructuring.  If the Divestiture does not close, in 2010 we will continue to depend upon Dow for a significant portion of HPR revenue.  In Symyx Software, our top 25 customers account for more than 60% of our annual revenue for that business.  If we are not able to effect the Divestiture and thereafter fail to maintain our business with Dow, or if one or more agreements with our top 25 customers are not fully renewed annually, our business, operating results and financial condition will be materially and adversely affected.

We are exposed to general global economic and market conditions, which declined significantly in 2008 and did not significantly recover in 2009.

Our business is subject to the effects of general economic conditions in the United States, Europe, Asia and globally, and, in particular, market conditions in the life science and chemical industries. For example, our tools revenue has been affected by customer delays and cancellations, and our software content and consulting service revenues have declined as customers cut costs, delay new projects and reduce staff.  Continued or worsening economic slowdowns globally in the life science and/or chemical industries will materially and adversely impact our business, operating results and financial condition.


Recent worldwide market turmoil adversely affects our customers, which in turn impacts our business and results of operations.

Our operations and performance depend on our customers having adequate resources to purchase our products and services. The unprecedented turmoil in the global markets and the global economic downturn generally continues to adversely impact our customers and potential customers. These market and economic conditions have continued to deteriorate globally, and may remain volatile and uncertain for the foreseeable future. Customers have altered and may continue to alter their purchasing and payment activities in response to deterioration in their businesses, lack of credit, economic uncertainty and concern about the stability of markets in general. Further, a number of our current and prospective customers have merged with others or been forced to raise significant amounts of capital. These market factors have, in turn, reduced customer demand for our software consulting services, reduced seat counts for our software and content at certain customers, and extended decision-making for major capital or software purchases. If we are unable to adequately respond to changes in demand resulting from these difficult market and economic conditions, our financial condition and operating results will be materially and adversely affected.

Difficulties we may encounter developing a new line of business, integrating acquisitions or growing through other means may divert resources, disrupt our business, and limit our ability to successfully expand our operations.

If we develop a new line of business or pursue a partnership or venture, our management’s attention may be diverted from normal daily operations of the business. Furthermore, acquisitions or other growth initiatives, such as our introduction of contract services in the life science market, places strain on our research, administrative and operational infrastructure and may, in the short-term, significantly impact our margins and profitability. As our operations expand domestically and internationally, and as we continue to acquire new businesses, we will need to continue to manage multiple locations and additional relationships with various collaborative partners, suppliers and other third parties. Our ability to manage our operations and further growth effectively requires us to continue improving our reporting systems and procedures and our operational, financial and management controls. In addition, SEC rules and regulations have increased the internal control and regulatory requirements under which we operate. We may not be able to successfully improve our management information and control systems to a level necessary to manage our acquisition activity or growth and we may discover deficiencies in existing systems and controls that we may not be able to remediate in an efficient or timely manner.

We have acquired a number of businesses in the past. In the future, we may engage in additional acquisitions and expand our business focus in order to exploit technology or market opportunities.  In the event of any future acquisitions or business expansions, we may issue stock that would dilute our current stockholders’ percentage ownership, pay cash, incur debts or assume liabilities. Our success depends upon our ability to successfully integrate the products, people, and systems we acquire in these transactions. We may not be able to successfully integrate acquired businesses into our existing business in a timely and non-disruptive manner or at all. In addition, acquisitions could result in, among other things, large one-time charges associated with acquired in-process research and development, amortization of acquisition-related intangible assets, future write-offs of goodwill and other acquisition-related intangible assets that are deemed to be impaired, restructuring charges related to consolidation of operations, charges associated with unknown or unforeseen liabilities of acquired businesses, increased general and administrative expenses, and the loss of key employees. As an example, in December 2008, with the recent decrease in our market capitalization, we recorded a $76.5 million impairment charge to our goodwill associated with our acquisitions.

In addition, there is no guarantee that we will successfully integrate a given acquisition target into our product portfolio after closing of such an acquisition.  For example, in October 2009 we recorded a loss of $2.0 million in connection with exiting the CDMO business, which we acquired in August 2008.

We expect our quarterly results of operations will fluctuate, and this fluctuation could cause our stock price to decline, causing investor losses.

Our quarterly operating results have fluctuated in the past and are likely to do so in the future.  In particular, third and fourth quarter revenue is often heavily dependent on closing sales for a few high-value tools to specific customers. The timing or occurrence of these sales is difficult to predict. Quarterly fluctuations also result from our customers’ budgetary cycles, as our customers typically expend their remaining capital budgets for the year in the fourth quarter. As a result, the fourth quarter historically has been our strongest quarter. These fluctuations could cause our stock price to fluctuate significantly or decline, as was the case when we reported revised projections for the balance of fiscal 2008 in October 2008. Revenue in future fiscal periods may be greater or less than revenue in the immediately preceding period or in the comparable period of the prior year. Some of the factors that could cause our operating results to fluctuate include:


general and industry-specific economic and financial uncertainties, which may affect our customers' capital investment levels and research and development investment decisions;

expiration of or reduction in revenue derived from research contracts with major collaborative partners, which may not be renewed or replaced with contracts with other companies, including the additional impact of the October 2009 Restructuring and the Divestiture on customers’ decision-making processes;

the amount and timing of royalties we receive from third parties, including those who license Symyx tools and Symyx Software for resale;

customers’ willingness to renew annual right to use software or content licenses or maintenance and support agreements;

the size and timing of both software and intellectual property licensing agreements we may enter into;

the size and timing of customer orders for, shipments of and payments related to Symyx tools;

the concentration of Symyx tools sales in the second half of the year, with the majority of those sales occurring  in the fourth quarter;

the sale of integrated workflows including software and tools that may cause our tools revenue to be recognized ratably over future periods under our revenue recognition policy;

the technical risks associated with the delivery of Symyx tools and the timing of customer acceptance of Symyx tools;

the timing and willingness of partners to commercialize our discoveries that would result in royalties;

the success rate of our discovery efforts associated with milestones and royalties;

special charges related to completed or potential acquisitions;

the size and timing of research and development programs we undertake on an internally funded basis;

developments or disputes concerning patent or other proprietary rights;

the structure, timing and integration of acquisitions of businesses, products and technologies and related disruption of our current business;

fluctuations in the market values of our cash equivalents and short and long-term investments and in interest rates, including any gains or losses arising on the sale of these investments;

changes in accounting rules and regulations, including those related to revenue recognition, stock-based compensation and accounting for uncertainty in income taxes; and

general and industry-specific economic and financial uncertainties, which may affect our customers' capital investment levels and research and development investment decisions.


A large portion of our expenses, including expenses for facilities, equipment and personnel, are relatively fixed in nature, which could contribute to adverse fluctuations in quarterly operating results. Accordingly, if our revenue declines or does not grow as anticipated due to the expiration of research contracts, failure to obtain new contracts, or other factors, we may not be able to correspondingly reduce our operating expenses. Failure to achieve anticipated levels of revenue would significantly harm our operating results.

The sales cycle for our tools, and for a number of our software products is long and complex, and requires us to invest substantial resources in a potential sale before we know whether the sale will occur.

We have a limited number of contracts for our tools, and for our software product offerings (other than content database subscriptions).  Our sales efforts require us to educate our potential customers about the full benefits of our solutions, which often require significant time and expense. Our sales cycle is typically from 12 to 18 months, and we incur significant expenses, and in many cases begin to build customer-specific tools prior to obtaining contractual commitments, as part of this process, without any assurance of resulting revenue.   As another example, in many cases an enterprise ELN deployment will require a long sales cycle (and also may result in delayed revenue, as there will be services deliverables with respect to which we have not established Vendor Specific Objective Evidence for pricing).  Investment of time and expense in the sales cycle that does not ultimately result in sales hurts our business. Factors impacting sales and the length of our sales cycle include, but are not limited to, the following:

complexity of convincing customers of the efficacy of an enterprise-wide ELN solution;

customers' budgetary constraints and internal acceptance review procedures;

limited number of customers that are willing to purchase our larger tools systems or enter into licensing agreements with us;

complexity and cost of our tools systems and difficulties we may encounter in meeting individual customer specifications and commitments; and
 
our ability to build new tools systems and design workflows to meet our customers’ demands.
 
Failure to successfully commercialize our discoveries, either independently or in collaboration with our customers and licensees, would reduce our long-term revenue and profitability.

In order for us to commercialize materials we discover and patent in our collaborations and internal research programs, we need to develop, or obtain through outsourcing arrangements, the capability to manufacture, market and sell products. Currently, we do not have these capabilities and we may not be able to develop or otherwise obtain them.   Most of our commercialization efforts are currently being done through collaborations with our customers and licensees.  We typically receive royalties on sales of products by our partners only if their products containing materials developed by us or if the products are produced using our methods. Commercialization of discovered materials is a long, uncertain and expensive process and we cannot control our partners’ activities in this regard. The failure of our partners to commercialize development candidates resulting from our research efforts could reduce our future revenue and would harm our business and operating results. In addition, our partners may delay or cancel commercialization of development candidates which may harm our business and operating results.  If we are unable to successfully commercialize products resulting from our proprietary research efforts, our future revenue and operating results would decline.

Strategic investment projects such as royalty-bearing programs, spin-offs and joint ventures may affect our operating results and financial condition and distract our management team.

We are constantly assessing strategic investment projects with potential to deliver significant value creation opportunity for our shareholders. These projects include, but are not limited to, royalty-bearing programs, spin-offs such as our Divestiture and joint ventures. The process of investigating and implementing these projects is risky, may create unforeseen operating difficulties and expenditures, may involve significant additional operating expenses or investments, and may distract our management team. Failure of any such investment project, if pursued, would have a material adverse effect on our operating results and financial condition.


Our stock price has been and may continue to be volatile.

The market price of our common stock has been highly volatile since our initial public offering. Volatility in the market price for our common stock can be affected by a number of factors, including, but not limited to, the following:
 
 
Market reaction to the Divestiture;

 
failure to achieve operating results within the guidance our senior management provides, as occurred in the quarter ended September 30, 2008, or downward revisions in guidance relative to previous forecasts as occurred in October 2008;
 
 
changes in our growth rates;
 
 
quarterly variations in our or our competitors' results of operations;
 
 
failure to achieve operating results projected by securities analysts;
 
 
changes in earnings estimates or recommendations by securities analysts;
 
 
changes in investors’ beliefs as to the appropriate valuation ratios for us and our competitors;
 
 
changes in investors’ acceptable levels of risk;
 
 
decisions by significant stockholders to acquire or divest their stock holdings, given the relatively low average daily trading volumes we have historically experienced;
 
 
changes in management;
 
 
the announcement of new products or services by us or our competitors, and investors’ reaction to the new product portfolio resulting from the October 2009 Restructuring;
 
 
speculation in the press or analyst community;
 
 
developments in our industry; and
 
 
general market conditions, political influences, and other factors, including factors unrelated to our operating performance or the operating performance of our competitors, such as global economic slowdown resulting from the current disruptions in the credit and financial markets. Particularly given the current economic downturn, we are concerned that market conditions may temper customer activity on major capital purchases such as Symyx tools, and significant enterprise investment in software.

These factors and fluctuations may materially and adversely affect the market price of our common stock.  Securities class action litigation is often brought against a company following periods of volatility in the market price of its securities. We may in the future be the target of similar litigation. Securities litigation, with or without merit, could result in substantial costs and divert management’s attention and resources, which could harm our business and financial condition, as well as the market price of our common stock. Additionally, volatility or a lack of positive performance in our stock price may adversely affect our ability to retain key employees, most of whom have been granted stock options or restricted stock units, or to use our stock to acquire other companies or technologies at a time when cash or financing for such acquisitions may not be available.


If we revise the projections we give to our stockholders regarding our anticipated financial results, and the revised projections are not well received by our stockholders, market analysts or investors, our stock price may be adversely affected.

Due to the possibility of fluctuations in our revenue and expenses, it is difficult for our management to predict or estimate our quarterly or annual operating results and to give accurate projections. Our operating results in some quarters may not meet the expectations of stock market analysts and investors.  In addition, as in the case of the revised projections for the balance of fiscal 2008 communicated in October 2008, we may update the financial projections we communicate to our stockholders from time to time to address recent developments, though we undertake no obligation to do so. In cases in which we lower our projections, our stock price will likely decline, and investors will experience a decrease in the value of their investment.

We may not be able to grow our business and achieve profitability.

Our ability to grow our business and achieve profitability is dependent on our ability to:
 
extend current research and development relationships and add new ones;

secure customers for the company’s new life sciences offerings;
 
secure new Symyx tools customers;
 
enter new partnerships or ventures with third parties that would use our technology and expertise to further develop and commercialize products;
 
add additional licensees of our software, discovered materials, and intellectual property;

maintain renewal rates for our database content business, in the face of competition and the increasing availability of free content;

convince existing customers to upgrade to products with greater functionality and increase the number of users within our existing customer base; and
 
make discoveries that our customers choose to commercialize that generate a substantial stream of royalties and other revenue.

Our ability to achieve our objectives and maintain or increase the profitability of our business will depend, in large part, on potential customers accepting our high-throughput screening technologies and methodologies as effective tools in the discovery of new materials. Historically, life science and chemical companies have conducted materials research and discovery activities internally using traditional manual discovery methods. In order for us to achieve our business objectives, we must convince these companies that our technology and capabilities justify outsourcing part of their basic research and discovery programs. We cannot assure you we will achieve the levels of customer acceptance necessary for us to maintain and grow a profitable business. Failure to achieve the necessary customer acceptance, extend current research relationships and add new ones, secure new tools customers, and add additional licensees of our software, discovered materials, and intellectual property would adversely affect our revenue and profitability and may cause our stock price to decrease.
 
Our inability to keep pace with technological advances and evolving industry standards would harm our business.

The market for our products is characterized by continuing technological development, evolving industry standards and changing customer requirements. Due to increasing competition in our field, it is likely that the pace of innovation and technological change will increase. Our success depends upon our ability to enhance existing products and services and to respond to changing customer requirements. Failure to develop and introduce new products and services, or enhancements to existing products, in a timely manner in response to changing market conditions, industry standards or other customer requirements would harm our future revenue and our business and operating results.


We depend on skilled and experienced personnel to operate our business effectively. If we are unable to recruit, hire and retain these employees, our ability to manage and expand our business will be harmed, which would impair our future revenue and operating performance.

Our success will depend on our ability to retain our current management and to attract and retain qualified personnel, including key scientific and highly skilled personnel. The hiring of qualified scientific and technical personnel is generally difficult because the number of people with experience in high-throughput materials science is limited. We encounter competition for qualified professionals, especially in the San Francisco Bay Area where we are headquartered. Further, as noted above, particularly with respect to our HPR business, in light of the October 2009 Restructuring, we will need personnel with specific skill sets that may be difficult to locate, attract and retain (this would be of particular risk to Symyx if the Divestiture fails to close for any reason). Although we have entered into employment contracts with most of our senior management, any of them may terminate their employment at any time.  In addition, we do not maintain “key person” life insurance policies covering any of our employees.  Competition for senior management personnel, as well as key scientific and other highly skilled personnel, is intense and we may not be able to retain our personnel.  The loss of the services of members of our senior management, as well as key scientific and other highly skilled personnel, could prevent the implementation and completion of our objectives.   Upon joining or promotion, new senior personnel must spend a significant amount of time learning our business model and management systems or their new roles, in addition to performing their regular duties. Accordingly, until new senior personnel become familiar with our business model and systems or with their new roles, we may experience some disruption to our ongoing operations.  Moreover, the loss of a member of our senior management or our professional staff would require the remaining executive officers to divert immediate and substantial attention to seeking a replacement.

Our ability to retain our skilled labor force and our success in attracting and hiring new skilled employees will be a critical factor in determining whether we will be successful in the future.  The recent decline in our market value of our common stock, as well as the October 2009 Restructuring, may complicate this effort by reducing the perceived value of equity compensation awards to our employees and candidates for employment. We may not be able to meet our future hiring needs or retain existing personnel.  We will face particularly significant challenges and risks in hiring, training, managing and retaining engineering and sales and marketing employees, as well as independent distributors, most of whom are geographically dispersed and must be trained in the use and benefits of our products. Failure to attract and retain personnel, particularly scientific and technical personnel, would impair our ability to grow our business.
 
Competition could increase, and competitive developments could render our technologies obsolete or noncompetitive, which would reduce our revenue and harm our business.

The field of high-throughput materials science is increasingly competitive. We are aware of companies that may apply their expertise in high-throughput chemistry to their internal materials research and development programs. There are also companies focusing on aspects of high-throughput chemistry for the discovery of materials on behalf of third parties. In addition, academic and research institutions may seek to develop technologies that would be competitive with our technologies for materials discovery. Because high-throughput materials science is an emerging field, competition from additional entrants and pricing pressure may increase. Both business units are facing increasing competition from a number of instrument manufacturing and software companies. To the extent these companies develop competing technologies, our own technologies, methodologies, systems and workflows, and software could be rendered obsolete or noncompetitive. We would then experience a decline in our revenue and operating results.

We conduct research programs for our own account and for a number of collaborative partners, and any conflicts between these programs would harm our business.

Our strategy includes conducting research programs for our own account as well as for collaborative partners. We believe our collaborative agreements are structured in a manner to enable us to minimize conflicts with our collaborators relating to rights to potentially overlapping leads developed through programs for our own account and through programs funded by a collaborator, or through programs funded by different collaborators. However, conflicts between a collaborator and us, or between or among collaborators, could potentially arise. In this event, we may become involved in a dispute with our collaborators regarding the material, including possible litigation. Disputes of this nature could harm the relationship between us and our collaborators, and concerns regarding our proprietary research programs could also affect our ability to enter into new collaborative relationships and cause our revenue and operating results to decline.


Our inability to adequately protect our proprietary technologies could harm our competitive position and have a material adverse effect on our business.

The success of our business depends, in part, on our ability to obtain patents and maintain adequate protection of our intellectual property for our technologies and products in the United States and other countries. The laws of some foreign countries do not protect proprietary rights to the same extent as the laws of the United States, and many companies have encountered significant problems in protecting their proprietary rights in these foreign countries. These problems can be caused by, for example, a lack of rules and processes allowing for meaningfully defending intellectual property rights. If we do not adequately protect our intellectual property, competitors may be able to practice our technologies and erode our competitive advantage, and our business and operating results could be harmed.

The patent positions of technology companies, including our patent positions, are often uncertain and involve complex legal and factual questions. We will be able to protect our proprietary rights from unauthorized use by third parties only to the extent that our proprietary technologies are covered by valid and enforceable patents or are effectively maintained as trade secrets. We apply for patents covering our technologies and products as we deem appropriate. However, we may not obtain patents on all inventions for which we seek patents, and any patents we obtain may be challenged and may be narrowed in scope or extinguished as a result of such challenges. We also have defended certain U.S. patents in multiple reexaminations, and may be forced to do so again. In addition, we are involved in several administrative proceedings (such as opposition proceedings in the European Patent Office) that challenge the validity of the patents we have obtained there. Our existing patents and any future patents we obtain may not be sufficiently broad to prevent others from practicing our technologies or from developing competing products. In that case, our revenue and operating results could decline.

We rely upon trade secret protection for certain of our confidential information. We have taken measures to protect our confidential information. These measures may not provide adequate protection for our trade secrets or other confidential information. For example, we seek to protect our confidential information by entering into confidentiality agreements with employees, collaborators, and consultants. Nevertheless, employees, collaborators or consultants may still disclose or misuse our confidential information, and we may not be able to meaningfully protect our trade secrets. In addition, others may independently develop substantially equivalent information or techniques or otherwise gain access to our trade secrets. Disclosure or misuse of our confidential information would harm our competitive position and could cause our revenue and operating results to decline.

Failure to adequately enforce our intellectual property rights could harm our competitive position and have a material adverse effect on our business.

Our success depends on our ability to enforce our intellectual property rights through either litigation or licensing. To be successful in enforcing our intellectual property through litigation or licensing there are several aspects to consider, including maintaining the validity of our intellectual property, proving that others are infringing, and obtaining a commercially significant outcome as a result of such infringement. Intellectual property litigation can succeed if our intellectual property withstands close scrutiny. If it does not withstand this scrutiny, we can lose part or all of our intellectual property position. In addition, we are involved in several administrative proceedings (such as opposition proceedings in the European Patent Office) that challenge the validity of the patents we have obtained there. We also have begun the process of defending certain U.S. patents in a reexamination. If we lose part or all of our intellectual property position, whether through litigation or opposition proceedings, our business and operating results may be harmed.

With regard to proving infringement of our intellectual property, our success depends in part on obtaining useable knowledge of what technologies others are practicing. If others do not publish or disclose the technologies that they are using, our ability to discover infringing uses and enforce our intellectual property rights will diminish. If we are unable to enforce our intellectual property rights or if the ability to enforce such rights diminishes, our revenue from intellectual property licensing and our operating results may decline.


Our intellectual property must protect our overall business structure by allowing us to obtain commercially significant results from litigation, including compensation and/or relevant injunctions, without resulting in undue cost and expense. Enforcement of our intellectual property through litigation can result in significant expenses, distractions, and risks that might cause us to lose focus or may otherwise harm our profitability and weaken our intellectual property position. Enforcement proceedings can adversely affect our intellectual property while causing us to spend resources on the enforcement proceedings. As our licensing activities have matured, we have become involved in arbitration, litigation and similar administrative proceedings to assert and defend our intellectual property. These matters may become material and more such matters may arise. Successful conclusion of these matters will assist our business, while unsuccessful conclusion of these matters will cost us time and money and possibly loss of rights. Our ability to manage the costs of these proceedings to obtain a successful result cannot be predicted.

Our business may be harmed if we are found to infringe proprietary rights of others.

Our commercial success also depends in part on ensuring we do not infringe patents or other proprietary rights of third parties. Others have filed, and in the future are likely to file, patent applications covering technologies that we may wish to utilize with our proprietary technologies, or products that are similar to products developed with the use of our technologies. If these patent applications result in issued patents and we wish to use the claimed technology, we would need to obtain a license from the third party and this would increase our costs of operations and harm our operating results.

Third parties may assert that we are employing their proprietary technology without authorization. In addition, third parties may obtain patents in the future and claim that use of our technologies infringes these patents. We could incur substantial costs and diversion of the time and attention of management and technical personnel in defending ourselves against any such claims. Furthermore, parties making claims against us may be able to obtain injunctive or other equitable relief that could effectively block our ability to further develop, commercialize and sell products, and such claims could result in the award of substantial damages against us. In the event of a successful claim of infringement against us, we may be required to pay damages and obtain one or more licenses from third parties. We may not be able to obtain these licenses at a reasonable cost, if at all. In that event, we could encounter delays in product introductions while we attempt to develop alternative methods or products, or be required to cease commercializing affected products, which would harm our operating results.

Fluctuation in foreign currency exchange rates may materially affect our financial condition and results of operations.

A significant portion of our business is now denominated in currencies other than our functional currencies or our reporting currency for consolidated financial statements. We are in the process of reducing monetary assets denominated in foreign currencies but expect to continue to have a significant balance to support our foreign operations. Material changes in foreign currency exchange rates may materially and adversely affect our financial condition and results of operations.

We depend on a limited number of suppliers and will be delayed in our manufacture or unable to manufacture tools if shipments from these suppliers are delayed or interrupted.

Key parts of our tools are currently available only from a single source or a limited number of sources. In addition, components of our capital equipment are available from one or only a few suppliers. While we are not bound by long-term arrangements with such suppliers, and have been able to find replacement vendors in prior instances, if supplies from these vendors are delayed or interrupted for any reason, we may not be able to get equipment or components for our tools or our own research efforts in a timely fashion or in sufficient quantities or under acceptable terms.

Even if alternative sources of supply are available, it could be time-consuming and expensive for us to qualify new vendors and integrate their components into our tools. In addition, we depend upon our vendors to provide components of appropriate quality and reliability. Consequently, if supplies from these vendors were delayed or interrupted for any reason, we could be delayed in our ability to develop and deliver products; these delays would materially and adversely affect our business in the event that a key transaction were to be impacted.


Failure to maintain effective internal controls in accordance with Section 404 of the Sarbanes-Oxley Act could have a material adverse effect on our business and stock price.

Each year we are required to document and test our internal control procedures in order to satisfy the requirements of Section 404 of the Sarbanes-Oxley Act, which requires annual management assessments of the effectiveness of our internal controls over financial reporting and a report by our Independent Registered Public Accounting Firm addressing these assessments and the effectiveness of internal control over financial reporting.  During the course of our testing we may identify deficiencies that we are required to remediate in order to comply with the requirements of Section 404. In addition, if we fail to maintain the adequacy of our internal controls, as such standards are modified, supplemented or amended from time to time; we may not be able to ensure that we can conclude on an ongoing basis that we have effective internal controls over financial reporting in accordance with Section 404 of the Sarbanes-Oxley Act. Furthermore, there are certain areas of accounting such as income tax that involve extremely complex rules that vary by country, where an inadvertent error, not misconduct, if undetected through effective internal control, could be deemed a material weakness in our internal controls. Failure to maintain an effective internal control environment could have a material adverse effect on our stock price.

If our products contain defects, it could expose us to litigation and harm our revenue.
 
The products we offer are complex and, despite extensive testing and quality control, may contain errors or defects, especially when we first introduce them. We may need to issue corrective releases of our software products to fix any defects or errors, and to perform warranty repairs for our tools. Any defects or errors could also cause injury to personnel and/or damage to our reputation and result in increased costs, loss of revenue, product returns or order cancellations, or lack of market acceptance of our products. Accordingly, any defects or errors could have a material and adverse effect on our business, results of operations and financial condition.
 
Our license agreements with our customers typically contain provisions designed to limit our exposure to potential product liability claims. It is possible, however, that the limitation of liability provisions contained in our license agreements may not be effective as a result of existing or future federal, state, or local laws or ordinances or unfavorable judicial decisions. Although we have not experienced any product liability claims to date, sale and support of our products entails the risk of such claims, which could be substantial in light of our customers’ use of such products in mission-critical applications. If a claimant brings a product liability claim against us, it could have a material adverse effect on our business, results of operations, and financial condition. Our products interoperate with many parts of complicated computer systems, such as mainframes, servers, personal computers, application software, databases, operating systems, and data transformation software. Failure of any one of these parts could cause all or large parts of computer systems to fail. In such circumstances, it may be difficult to determine which part failed, and it is likely that customers will bring a lawsuit against several suppliers. Even if our product is not at fault, we could suffer material expense and material diversion of management time in defending any such lawsuits.

We are exposed to risks associated with export sales and international operations that may limit our ability to generate revenue from our products and intellectual property.

We have established operations in certain parts of Europe and Asia and may continue to expand our international presence in order to increase our export sales. Export sales to international customers and maintaining operations in foreign countries entail a number of risks, including, but not limited to:
 
obtaining and enforcing intellectual property rights under a variety of foreign laws;
 
unexpected changes in, or impositions of, legislative or regulatory requirements;
 
delays resulting from difficulty in obtaining export licenses for certain technology, and tariffs, quotas, and other trade barriers and restrictions;


longer payment cycles and greater difficulty in accounts receivable collection;
 
potentially adverse taxes;
 
currency exchange fluctuations;
 
greater difficulties in maintaining and enforcing United States accounting and public reporting standards;
 
greater difficulties in staffing and managing foreign operations; and
 
the burdens of complying with a variety of foreign laws.

We are also subject to general geopolitical risks in connection with international operations, such as political, social and economic instability, terrorism, potential hostilities, changes in diplomatic and trade relationships, and disease outbreaks. Although to date we have not experienced any material adverse effect on our operations as a result of such regulatory, geopolitical, and other factors, we cannot assure investors that such factors will not have a material adverse effect on our business, financial condition, and operating results or require us to modify our current business practices.

We use hazardous materials in our business, and any claims relating to improper handling, storage, or disposal of these materials could subject us to significant liabilities.

Our HPR business involves the use of a broad range of hazardous chemicals and materials. Environmental laws impose stringent civil and criminal penalties for improper handling, disposal and storage of these materials. We cannot completely eliminate the risk of accidental contamination or injury from the handling, disposal or storage of these materials. In the event of an improper or unauthorized release of, or exposure of individuals to, hazardous materials, we could be subject to civil damages due to personal injury or property damage caused by the release or exposure and the resulting liability could exceed our resources. A failure to comply with environmental laws could result in fines and the revocation of environmental permits, which could prevent us from conducting our business. Accordingly, any violation of environmental laws or failure to properly handle, store, or dispose of hazardous materials could result in restrictions on our ability to operate our business and could require us to incur potentially significant costs for personal injuries, property damage and environmental clean-up and remediation.

Compliance with current and future environmental regulations may be costly, which could impact our future earnings.
 
We are subject to environmental and other regulations due to our production and marketing of products in certain states and countries. We also face increasing complexity in our product design and procurement operations as we adjust to new and upcoming requirements relating to the materials composition of our products, including the restrictions on lead and certain other substances in electronics that apply to specified electronics products put on the market in the European Union as of July 1, 2006 (Restriction of Hazardous Substances in Electrical and Electronic Equipment Directive (EU RoHS)). The European Union has also finalized the Waste Electrical and Electronic Equipment Directive (WEEE), which makes producers of electrical goods financially responsible for specified collection, recycling, treatment and disposal of past and future covered products. Other countries, such as the United States, China and Japan, have enacted or may enact laws or regulations similar to the EU RoHS or WEEE Legislation. These and other environmental regulations may require us to reengineer certain of our existing policies and procedures to comply with environmental regulations.

Our primary facilities are located near known earthquake fault zones, and the occurrence of an earthquake or other disaster could cause damage to our facilities and equipment, could cause us to cease or curtail our operations.

Our main U.S. facilities are located in the Silicon Valley near known earthquake fault zones and are vulnerable to damage from earthquakes. In October 1989, a major earthquake struck this area, causing significant property damage and a number of fatalities. We are also vulnerable to damage from other types of disasters, including fire, floods, power outages or losses, communications failures, and similar events. If any disaster were to occur, our ability to operate our business at our facilities would be seriously, or potentially completely, impaired. In addition, the unique nature of our research activities and of much of our equipment could make it difficult for us to recover from a disaster. We do not carry earthquake insurance on the property that we own and the insurance we do maintain may not be adequate to cover our losses resulting from disasters or other business interruptions. Accordingly, an earthquake or other disaster could materially and adversely harm our business and operating results.


Provisions of our charter documents may have anti-takeover effects that could prevent a change in our control, even if this would be beneficial to stockholders.

Provisions of our amended and restated certificate of incorporation, bylaws, and Delaware law could make it more difficult for a third party to acquire us, even if doing so would be beneficial to our stockholders. These provisions include:
 
a classified Board of Directors, in which our board is divided into three classes with three-year terms with only one class elected at each annual meeting of stockholders, which means that holders of a majority of our common stock would need two annual meetings of stockholders to gain control of the Board;
 
a provision that prohibits our stockholders from acting by written consent without a meeting;
 
a provision authorizing the issuance of “blank check” preferred stock that could be issued by our Board of Directors to increase the number of outstanding shares and thwart a takeover attempt;

a provision that permits only the Board of Directors, the President or the Chairman to call special meetings of stockholders; and
 
a provision that requires advance notice of items of business to be brought before stockholders meetings.

These provisions can be amended only with the vote of the holders of 66 2/3% of our outstanding capital stock.

ITEM 1B. UNRESOLVED STAFF COMMENTS

None.

ITEM 2. PROPERTIES

Our facilities currently consist of approximately 264,000 square feet of office, research and manufacturing space in California, New Jersey and Oregon, as well as Japan, Switzerland, France, Germany and Sweden. We own an approximately 39,000 square-foot building at 3100 Central Expressway, Santa Clara, California which consists of office and laboratory space. The remaining properties consist of office, manufacturing and laboratory spaces leased to us under lease agreements that expire from 2010 to 2016. While our facilities are shared between our business units, much of our Software business unit is housed in our San Ramon, California and Bend, Oregon facilities, with much of our corporate staff located in Sunnyvale, California. A closing condition of the Divestiture Agreement is that  HPR Global will sublease from us all of the Sunnyvale, California facility currently devoted to the tools portion of HPR, and our office in Geneva, Switzerland.  We believe our existing properties, including both owned and leased sites, are in good condition and are adequate to meet our current and reasonably foreseeable future requirements.

ITEM 3. LEGAL PROCEEDINGS

Not applicable.

ITEM 4. SUBMISSION OF MATTERS TO A VOTE OF SECURITY HOLDERS

Not applicable.


PART II

ITEM 5.  MARKET FOR REGISTRANT’S COMMON EQUITY, RELATED STOCKHOLDER MATTERS AND ISSUER PURCHASES OF EQUITY SECURITIES

Our common stock is traded on the NASDAQ Global Select Market under the symbol “SMMX.” The following table sets forth, for the period indicated, the low and high closing prices per share for our common stock as reported by the NASDAQ Global Select Market.

   
HIGH
   
LOW
 
             
2008
           
First Quarter
  $ 8.18     $ 6.19  
Second Quarter
  $ 8.40     $ 6.93  
Third Quarter
  $ 12.24     $ 6.59  
Fourth Quarter
  $ 9.51     $ 3.03  
                 
2009
               
First Quarter
  $ 5.92     $ 2.45  
Second Quarter
  $ 6.57     $ 3.73  
Third Quarter
  $ 6.99     $ 5.88  
Fourth Quarter
  $ 6.92     $ 4.07  


As of February 23, 2010, there were approximately 89 holders of record of our common stock.

Dividend Policy

We have not declared or paid any dividends on our common stock since our inception and we currently intend to retain all future earnings, if any, to use in our business. Further, under the terms of our credit agreement with Bank of America, N.A., we are restricted from making any cash dividend payments. Accordingly, we do not anticipate paying any cash dividends in the foreseeable future.

Stock Performance Graph

The following graph compares the cumulative total stockholder return on our common stock with the cumulative total return for each of the NASDAQ composite and the S&P Biotechnology index for the 5-year period ended December 31, 2009. The stock price performance shown on the graph below is not necessarily indicative of future price performance.


 
 
      12/04       12/05       12/06       12/07       12/08       12/09  
                                                 
Symyx Technologies, Inc.
    100.00       90.82       71.85       25.56       19.77       18.30  
NASDAQ Composite
    100.00       101.33       114.01       123.71       73.11       105.61  
S&P Biotechnology
    100.00       118.28       115.04       111.10       122.56       113.66  
 

ITEM 6.  SELECTED FINANCIAL DATA

The financial information as of December 31, 2009 and 2008 and for each of the three years in the period ended December 31, 2009 is derived from audited financial statements included elsewhere in this Annual Report on Form 10-K. The table should be read in conjunction with Item 7, "Management's Discussion and Analysis of Financial Condition and Results of Operations," and Item 8, "Financial Statements and Supplementary Data."

(In thousands, except per share data)
 
For the Years Ended December 31,
 
Consolidated Statements of Operations Data:
 
2009
   
2008
   
2007
   
2006
   
2005
 
Revenue:
                             
Service
  $ 70,542     $ 74,892     $ 59,034     $ 57,933     $ 56,980  
Product
    23,888       25,033       34,898       33,526       26,663  
License fees, content and royalties
    56,016       59,120       31,140       33,441       24,494  
Total revenue
    150,446       159,045       125,072       124,900       108,137  
Costs of revenue:
                                       
Cost of service
    26,012       21,094       8,995       6,519       3,826  
Cost of products
    10,806       10,444       14,281       11,811       11,090  
Cost of license fees, content and royalties
    5,649       5,876       1,773       -       -  
Amortization of intangible assets
    5,909       7,355       3,873       2,571       2,252  
Total costs of revenue
    48,376       44,769       28,922       20,901       17,168  
Gross profit
    102,070       114,276       96,150       103,999       90,969  
Operating expenses:
                                       
Research and development
    52,350       75,365       66,186       59,268       47,151  
Sales, general and administrative
    45,071       54,589       41,935       34,497       25,249  
Restructuring charges
    2,578       4,952       -       -       -  
Impairment to goodwill, intangibles and other long-lived assets
    327       90,330       -       -       -  
Acquired in-process research and development
    -       -       2,500       1,392       1,590  
Amortization of intangible assets
    5,791       5,903       2,253       1,699       1,263  
Total operating expenses
    106,117       231,139       112,874       96,856       75,253  
Income (loss) from operations
    (4,047 )     (116,863 )     (16,724 )     7,143       15,716  
Gain from sale of equity interest in Ilypsa, Inc.
    -       4,939       40,826       -       -  
Loss from sale of IntegrityBio business
    (2,009 )     -       -       -       -  
Interest and other income (expense), net
    (229 )     135       5,694       7,709       4,427  
Income (loss) before income tax benefit (expense) and equity loss
    (6,285 )     (111,789 )     29,796       14,852       20,143  
Income tax benefit (expense)
    5,147       5,173       (10,698 )     (6,382 )     (8,141 )
Equity in loss from investment in Visyx Technologies Inc.
    -       -       (314 )     (186 )     -  
Net income (loss)
  $ (1,138 )   $ (106,616 )   $ 18,784     $ 8,284     $ 12,002  
                                         
Basic net income (loss) per share
  $ (0.03 )   $ (3.16 )   $ 0.57     $ 0.25     $ 0.37  
                                         
Diluted net income (loss) per share
  $ (0.03 )   $ (3.16 )   $ 0.56     $ 0.24     $ 0.35  
                                         
Shares used in computing basic net income (loss) per share
    34,321       33,747       33,199       33,199       32,819  
                                         
Shares used in computing diluted net income (loss) per share
    34,321       33,747       33,557       34,214       34,564  

 
   
December 31,
 
(In thousands)
 
2009
   
2008
   
2007
   
2006
   
2005
 
Consolidated Balance Sheet Data:
                             
Cash, cash equivalents and marketable securities
  $ 81,777     $ 66,415     $ 45,472     $ 149,995     $ 168,625  
Working capital
  $ 57,391     $ 41,393     $ 40,750     $ 146,180     $ 162,237  
Long-term investments
  $ 15,147     $ 15,147     $ 13,500     $ 13,714     $ -  
Goodwill and intangible assets
  $ 80,290     $ 93,247     $ 180,515     $ 31,657     $ 32,065  
Total assets
  $ 226,808     $ 227,585     $ 316,898     $ 260,006     $ 241,412  
Total stockholders' equity
  $ 156,734     $ 152,083     $ 252,241     $ 228,376     $ 218,529  


ITEM 7.  MANAGEMENT’S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION AND RESULTS OF OPERATIONS

All percentage amounts and ratios were calculated using the underlying data in thousands. Operating results for the year ended December 31, 2009 are not necessarily indicative of the results that may be expected for future fiscal years. In particular, we have described our expectations with respect to the Divestiture which, if closed, will materially impact our future results.  For purposes of this discussion and analysis in this Report, however, we have presented our analysis (with some clarifying changes set out below) to reflect the fact that the Divestiture has not occurred (and may not occur).  The following discussion and analysis should be read in conjunction with our historical financial statements and the notes to those financial statements that are included in Item 8 of Part II of this Annual Report on Form 10-K.

Overview

Since our inception, we have invested heavily in developing technology, laboratory systems and software to automate, accelerate and digitize traditional R&D and pursue high-throughput materials research.  Our scientific team has deep technical expertise. Through Symyx Software, we offer customers integrated R&D collaboration, execution and analysis applications, and access to scientific content and industry-leading chemical informatics, logistics and decision-support applications. Through Symyx HPR, we historically have provided research services to our customers and sometimes enter into longer-term, broad technical alliances for discovery and development of new materials.  We also apply our expertise in high-throughput research technologies to offer automated tools to enable improved R&D execution in our customers’ laboratories.
 
We have generated revenue and cash flows from operations from licensing Symyx Software, subscriptions to certain scientific content and accompanying services and support; from selling and supporting Symyx HPR tools; from providing research services; and from licenses and royalties from our discovered materials and intellectual property.

Recent Events

Our major recent events and their impact on our business are highlighted below:

·
Profitability – Fourth quarter of 2009 net profit was $1.7 million, or $0.05 per diluted share, following the third quarter’s net profit of $1.5 million, or $0.04 per diluted share, and reflecting the Company’s $32.5 million, or 25%, year-over-year reduction in R&D, sales and general and administrative expenses in 2009 relative to 2008.
   
·
Symyx Notebook 6.4 – In January 2010, we announced the release of Symyx Notebook 6.4, offering scientists improved support for method development, validation and execution in regulated and non-regulated analytical labs. This latest release of Symyx's ELN offers new cross-experiment referencing and reporting capabilities that improve collaborative workflows for multidisciplinary teams working in the life sciences, chemicals, energy and consumer products industries.
   
·
Workflow Agreement with China Petroleum & Chemical Corporation – In November 2009, we announced a deal with China Petroleum & Chemical Corporation (Sinopec Corp.) to supply a Zeolite Synthesis Workflow for research in energy and chemical development. This will be Symyx’s first large-scale implementation of a high-throughput system with a Chinese company. We expect to assign the agreement underlying this tools sale to HPR Global in the Divestiture.
   
·
Hosted Informatics – In October 2009, we announced the launch of hosted informatics software to researchers working in the pharmaceutical, biotechnology and chemical industries and academia. The new hosted offerings, to be accessed via a software-as-a-service business model, will combine Symyx software with data archiving capabilities in a secure, state-of-the-art data hosting and communications facility. The hosted informatics environment will enable more R&D organizations to benefit from scientific software by reducing the requirements for information technology (IT) infrastructure and resources, lowering total cost of ownership and accelerating ELN deployment.
   
·
October 2009 Restructuring -- In October 2009, we commenced the October 2009 Restructuring to address underperformance in our CDMO acquired as part of the IntegrityBio acquisition in fiscal 2008, and to address an anticipated decline in demand for research services following the 2009 year end.  In the fourth quarter of 2009, we exited our CDMO business and began a process to reduce HPR staffing by approximately 75 employees, representing a 15% reduction in total Symyx headcount. We completed the majority of these restructuring actions by December 31, 2009, and will substantially complete the remaining balance of these actions in the first quarter of 2010.


·
HPR Divestiture -- On February 11, 2010, and following an extensive sales process led by our financial advisors, we announced the execution of a Divestiture Agreement and the HPR Divestiture pursuant to which Symyx will divest HPR’s tools operations and certain of our recently restructured contract research services operations to a newly formed company, HPR Global. HPR’s president, John S. Senaldi, resigned his employment from Symyx prior to the signing of the Divestiture Agreement to lead the acquisition of HPR assets as founder and chief executive officer of HPR Global.  Pursuant to the Divestiture Agreement, we will transfer to HPR Global substantially all existing HPR physical assets and certain intellectual property assets, including a portion of our patent portfolio and certain components of our LEA software suite. Symyx also expects to provide approximately $8.6 million of positive net working capital (mostly in cash) at closing.  In return, Symyx expects to receive a $10.0 million note and common stock representing an approximately 19.5% equity interest in HPR Global. Symyx will retain all existing rights to royalties and licensing fees previously included in HPR, as well as relevant patents underlying these entitlements. Finally, we anticipate HPR Global will offer employment to substantially all current HPR employees following the closing of the Divestiture. Symyx expects to close the Divestiture by the end of March 2010, and to conclude certain remaining legacy chemical research services contracts by the end of the second quarter of 2010.  As a result of these actions, Symyx expects to conclude all HPR activities other than its ongoing license and royalty entitlements. We believe the Divestiture will allow Symyx to operate as a highly-focused, positive cash flow, software-only business, and to capitalize on its strategic growth opportunities.
 
Impairment to Goodwill, Intangibles and Other Long-lived Assets

In the fourth quarter of 2008, pursuant to our accounting policy, we performed an annual impairment test of goodwill. As a result of this analysis, we concluded that the carrying amounts of goodwill included in our Symyx Software and Symyx HPR segments exceeded their implied fair values and recorded an impairment charge of approximately $76.5 million, which is included in the caption “Impairment to Goodwill, Intangibles and Other Long-Lived Assets.”  The impairment charge was determined by comparing the carrying value of goodwill assigned to the reporting units within these segments as of December 1, 2008, with the implied fair value of the goodwill. We considered both the income and market approaches in determining the implied fair value of the goodwill based upon a blended approach. The income approach uses estimates of future operating results and cash flows of each of the reporting units discounted at estimated discount rates ranging from 19% to 21%. The estimates of future operating results and cash flows were principally derived from an updated long-term financial forecast developed as part of our strategic planning cycle conducted annually during the fourth quarter of 2008. The decline in the implied fair value of the goodwill and resulting impairment charge was primarily driven by the updated long-term financial forecasts, which showed lower estimated near-term and longer-term profitability compared to estimates developed at the time of the completion of the MDL and IntegrityBio acquisitions. Refer to Note 1 of the Notes to Consolidated Financial Statements for further details.

In the fourth quarter of 2008, due to the significant decline of our market capitalization, we also performed an impairment test of long-lived assets. As a result of this analysis, we concluded that the carrying amounts of intangibles and other long-lived assets in Symyx HPR segments exceeded their implied fair values and recorded an impairment charge of approximately $13.8 million, which is also included in the caption “Impairment to Goodwill, Intangibles and Other Long-Lived Assets.”

No material impairment charges were recorded in 2009.

Integrity Biosolution, LLC

On August 13, 2008, we acquired IntegrityBio, a privately-held research service company based in Camarillo, California for approximately $10.2 million, with additional contingent consideration as described below.


In accordance with the authoritative guidance issued by the Financial Accounting Standards Board (FASB) on business combinations, we allocated the purchase price to the tangible assets, liabilities and intangible assets acquired, based on their estimated fair values. The excess purchase price over the fair values was recorded as goodwill. The fair value assigned to intangible assets acquired was based on estimates and assumptions determined by management. The acquired goodwill was assigned entirely to our research business. Purchased intangibles with finite lives are amortized on a straight-line basis over their respective useful lives.
 
The total cash purchase price for this acquisition was $10.2 million, including working capital adjustments of $0.6 million paid in January 2009, and $0.2 million in transaction costs, consisting of legal and other professional service fees.

The purchase price allocation is as follows (in thousands):

   
Amount
 
Fair value of net assets acquired
  $ 1,948  
Intangible assets
    2,860  
Goodwill
    5,440  
Total
  $ 10,248  

The fair values of IntegrityBio’s net assets as of the acquisition date were (in thousands):

   
Amount
 
Cash
  $ 32  
Accounts receivable
    789  
Plant, property and equipment
    1,379  
Accounts payable and other accrued liabilities
    (127 )
Accrued compensation
    (47 )
Deferred revenue
    (78 )
Fair value of IntegrityBio's net assets
  $ 1,948  

In October 2009, to address underperformance in our CDMO operations acquired as part of the IntegrityBio acquisition, and to address the anticipated decline in the demand for research services after 2009, we exited our CDMO operations and commenced a plan to reduce our HPR staffing by approximately 75 employees, representing a 15% reduction in our total current headcount. We completed the majority of these restructuring actions by December 31, 2009, and will substantially complete the remaining balance of these actions in the first quarter of 2010. In the fourth quarter of 2009, we sold all the tangible and intangible assets acquired during the IntegrityBio acquisition and recorded a total loss of $2.0 million.

Acquisition of MDL Group Companies

On October 1, 2007, we acquired MDL for $123 million in cash. Of the $123 million cash paid, the parties placed $10 million in escrow pending the final determination of any detriments suffered or benefits enjoyed by MDL as a result of pre-closing intercompany transactions between certain MDL group companies and the seller. The escrow account (including interest earned) was subsequently settled in 2009, resulting in a distribution of $6.6 million to Symyx (including $5.0 million in working capital adjustments, a $1.3 million tax reimbursement and a $325,000 reimbursement for professional fees) and the remaining balance to the seller of MDL.

The purchase price for this acquisition was $121.5 million, consisting of approximately $118.0 million in cash and $3.5 million in transaction costs, consisting of banking, legal and other professional service. The purchase price allocation is as follows (in thousands):

 
   
Amount
 
Fair value of net liabilities assumed
  $ (5,605 )
Accrued restructuring costs
    (6,823 )
In-process research and development
    2,500  
Intangible assets
    59,000  
Deferred tax liabilities
    (22,428 )
Goodwill
    95,150  
Total
  $ 121,794  


The fair values of MDL’s net liabilities as of the acquisition date were (in thousands):

   
Amount
 
Accounts receivable, net
  $ 4,417  
Prepaids and other assets
    3,549  
Plant, property and equipment
    4,851  
Accounts payable and other accrued liabilities
    (2,046 )
Accrued compensation
    (4,961 )
Deferred revenue
    (10,404 )
Fair value of MDL’s net liabilities
  $ (4,594 )


Goodwill from the MDL acquisition is not deductible for federal income tax purposes and partially deductible for state income tax purposes.

Critical Accounting Policies

We prepare our financial statements and accompanying notes in accordance with generally accepted accounting principles in the United States (GAAP). Note 1 of the Notes to Consolidated Financial Statements included under Item 7 in this Annual Report on Form 10-K describes the significant accounting policies and methods used in the preparation of the consolidated financial statements. Preparing financial statements and related disclosures requires management to exercise judgment in making estimates and assumptions that affect the reported amounts of assets, liabilities, revenue and expenses. These estimates and assumptions are affected by management’s application of accounting policies. Estimates include assumptions such as the elements comprising a revenue arrangement, including the distinction between software upgrades/enhancements and new products, when our products achieve technological feasibility, the assumptions used in determining the implied fair value of goodwill, intangibles and other long-lived assets, assumptions used to determine the stock-based compensation of our equity awards, including the volatility rate and the forfeiture rates for stock-based awards, reserve for excess or obsolete inventory, future warranty expenditures, significant management judgment required in determining the provision for income taxes, deferred tax assets and liabilities and any valuation allowance recorded against net deferred tax assets, the potential outcome of future tax consequences of events recognized in the our financial statements or tax returns, the foreign currency rate used in determining the effect of foreign currency exchange rate fluctuation on our financial statements and the accounting policies adopted to defer costs associated with various contracts.  We evaluate our estimates, including those mentioned above, on an ongoing basis. We base our estimates on historical experience and on various other assumptions that we believe to be reasonable under the circumstances, the results of which form our basis for making judgments about the carrying value of assets and liabilities that are not readily apparent from other sources.  Actual results may differ from those estimates under different assumptions or conditions.

Source of Revenue and Revenue Recognition Policy

We generate revenue from services provided under research collaborations, the sale of products, license of software, content subscriptions, provision of support and maintenance services, and the license of intellectual property. It is possible for our customers to work with us in multiple areas of our business and contracts may include multiple elements of service revenue, product revenue, and license and royalty revenue. In determining the basis for non-software product revenue recognition, we first determine the fair value of any extended warranty services and defer this revenue to be recognized over the service period. For those contracts that involve multiple element deliverables, we identify all deliverables and allocate revenue among the units of accounting. In an arrangement that includes software that is more than incidental to the products or services as a whole, we recognize revenue from the software and software-related elements, as well as any non-software deliverable(s) for which a software deliverable is essential to its functionality, in accordance with the authoritative guidance on software revenue recognition.


Service Revenue

We recognize revenue from research agreements, software consulting agreements, and support and maintenance agreements as earned upon performance of the services specified in the agreements. Payments received that are related to future performance are deferred and recognized as revenue as the performance requirements are fulfilled.

Non-refundable up-front payments received in connection with research and development collaboration agreements, including technology access fees, are deferred and recognized as earned upon performance of the services over the relevant periods specified in the agreement, generally the research term. Research revenue is either recognized as research service time is delivered to the customer or as the results of research experiments are delivered to the customer over the term of the agreement. Revenue from milestone payments, which are substantially at risk until the milestones are completed, is recognized upon completion of these milestone events. Milestone payments to date have been immaterial.

Revenue allocable to support and maintenance is recognized on a straight-line basis over the period the support and maintenance is provided. Our software licenses may provide for technical support, bug fixes and rights to unspecified upgrades on a when-and-if-available basis for periods defined within the contract. Revenue related to this customer support and maintenance is deferred and recognized over the term of the contracted support.

For many customers, we have developed custom registration and other tools that are typically delivered on a time and materials basis. These custom development projects are generally not sold in connection with a new software license deal, but rather to customers that have been using our software products for an extended period of time. Revenue from these arrangements is usually recognized on a monthly basis as the services are delivered and invoiced.

Product Sales

We recognize revenue from the sale of Symyx HPR tools and the license of associated software, and all related costs of products sold are expensed, once delivery has occurred and customer acceptance has been achieved. A determination is made for each system delivered as to whether software is incidental to the system as a whole. Revenue from the sale of HPR tools is earned and recognized when persuasive evidence of an arrangement exists, delivery of the product has occurred, no significant obligations with regard to implementation remain, the fee is fixed or determinable, and collectibility is reasonably assured. If there are extended payment terms, we recognize product revenue as these payments become due. We consider all arrangements with payment terms extending beyond 12 months not to be fixed or determinable. If the fee is not fixed or determinable, revenue is recognized as payments become due from the customer. In multiple element arrangements, we use the residual method to allocate revenue to delivered elements once we have established fair value for all undelivered elements. A warranty expense accrual is established at the time of delivery for all tool sales.

Software License and Database Content Fees

For database content and software licensed on an annual right to use basis, revenue is recognized on a straight-line basis over the term of the license. For revenue allocable to the software portion of a multiple element arrangement or licensed on a perpetual basis, we recognize revenue upon delivery of the software product to the end-user and commencement of the license, unless we have ongoing obligations for which fair value cannot be established or the fee is not fixed or determinable or collectibility is not probable, in which case we recognize revenue only when each of these criteria have been met. By way of example, for our ELN software products and the software products we acquired from MDL, we have not yet established the fair value of certain ongoing obligations and accordingly, any perpetual license fees are recognized ratably over the period of the ongoing obligations (typically a bundled support and maintenance commitment of one year). The only software product for which we have established Vendor Specific Objective Evidence of fair value is our LEA software product maintenance and annual licenses. We consider all arrangements with payment terms longer than 12 months not to be fixed or determinable. If the fee is not fixed or determinable, revenue is recognized as payments become due from the customer. If evidence of the fair value of one or more undelivered elements does not exist, the total revenue is deferred and recognized when delivery of those elements occurs, or when fair value for any remaining undelivered elements can be established, or when the only remaining undelivered elements are post-contract customer support, which we will recognize ratably over the term of support.
       

Intellectual Property License Fees and Royalties

We recognize license fee revenue for licenses to our intellectual property when earned under the terms of the agreements. Generally, revenue is recognized upon transfer of the license unless we have continuing obligations for which fair value cannot be established, in which case the revenue is recognized over the period of the obligation. If there are extended payment terms, we recognize license fee revenue as these payments become due. We consider all arrangements with payment terms extending beyond 12 months not to be fixed or determinable. In certain licensing arrangements there is provision for a variable fee as well as a non-refundable minimum amount. In such arrangements, the amount of the non-refundable minimum guarantee is recognized upon transfer of the license unless we have continuing obligations for which fair value cannot be established, and the amount of the variable fee in excess of the guaranteed minimum is recognized as revenue when it is fixed or determinable.

We recognize royalty revenue based on reported sales by third party licensees of products containing our materials and intellectual property. If there are extended payment terms, royalty revenue is recognized as these payments become due. Non-refundable royalties, for which there are no further performance obligations, are recognized when due under the terms of the agreements.

See Note 1 of the Notes to Consolidated Financial Statements for a further discussion of our revenue recognition policies.

Goodwill, Intangible Assets and Other Long-Lived Assets
 
We test goodwill of our reporting units for impairment annually during our fourth quarter or whenever events occur or circumstances change, such as an adverse change in business climate or a decline in the overall industry, that would more likely than not reduce the fair value of a reporting unit below its carrying amount. Based on the evaluation of the operating segments in 2008, we allocated goodwill into three reporting units: Symyx Software and Symyx Research and Symyx Tools. Symyx Research and Symyx Tools comprised the Symyx HPR operating segment.
 
In 2009, due to the change in Symyx’s business and therefore combination of Symyx Research and Symyx Tools within the HPR operating segment, we allocated goodwill into two reporting units: Symyx Software and Symyx HPR, consistent with our segment disclosure described in Note 6 of the Notes to Consolidated Financial Statements.
 
We test other long-lived assets, including property, equipment and leasehold improvements and other intangible assets subject to amortization, for recoverability whenever events or changes in circumstances indicate that the carrying value of those assets may not be recoverable.

In estimating the fair value of the reporting units with recognized goodwill for the purposes of our annual or periodic analyses, we make estimates and judgments about the future cash flows of these reporting units. Our cash flow forecasts are based on assumptions that are consistent with the plans and estimates we are using to manage the underlying reporting units. In addition, we make certain judgments about allocating shared assets such as accounts receivable and property, plant and equipment to the estimated balance sheet for those reporting units. We also consider our market capitalization (adjusted for unallocated monetary assets such as cash, marketable debt securities and debt) on the date we perform the analysis.


In 2008, we recorded an impairment charge of $90.3 million to goodwill, intangible assets and other long-lived assets. See further discussion in Note 1 of the Notes to Consolidated Financial Statements.

In 2009, we recorded an additional impairment charge of $327,000 to goodwill in connection with the IntegrityBio additional consideration as discussed in Note 1 of the Notes to Consolidated Financial Statements.

Stock-Based Compensation

Our stock-based compensation expense is estimated at the grant date based on the award’s fair value as calculated by the Black-Scholes-Merton (BSM) option-pricing model and is recognized as expense over the requisite service period. The BSM model requires various highly judgmental assumptions including expected volatility and option life. We estimated volatility using historical stock price information. We estimated option life using simplified method. If any of the assumptions used in the BSM model change significantly, stock-based compensation expense may differ materially in the future from that recorded in the current period. In addition, we are required to estimate the expected forfeiture rate and only recognize expense for those shares expected to vest. We estimate the forfeiture rate based on historical experience. To the extent our actual forfeiture rate is different from our estimate, stock-based compensation expense is adjusted accordingly. Included in cost and operating expenses is stock-based compensation expense recognized in our results of operations for the years ended December 31, 2009, 2008, and 2007 as follows (in thousands):

   
2009
   
2008
   
2007
 
Costs of revenue
  $ 361     $ 227     $ 294  
Research and development
    1,183       1,396       2,627  
Sales, general and administrative
    2,856       2,745       2,796  
Total
  $ 4,400     $ 4,368     $ 5,717  


Write-downs for Excess and Obsolete Inventory

We carry our inventory at the lower of cost or market, cost generally being determined on a specific identification basis. We apply judgment in determining the provisions for slow-moving, excess and obsolete inventories based on historical experience and anticipated product demand. In 2009, 2008 and 2007, we wrote-down $562,000, $1.2 million and $396,000 of excess and obsolete inventory, respectively.
 
Reserves for Warranties

A warranty expense accrual is established at the time of customer acceptance of a Symyx tools system and is included as a cost of product sold. Management is required to exercise judgment in establishing the appropriate level of warranty expense accrual for each Symyx tools system delivered. Factors that affect our warranty liability include the number of installed units, historical and anticipated rates of warranty claims, and cost per claim. The actual results with regard to warranty expenditures could have a material impact on our financial statements. When actual warranty costs are anticipated to be higher than our original estimates, an additional expense is charged to cost of products sold in the period in which such a determination is made. When actual warranty costs are lower than our original estimates, the difference will have a favorable impact to cost of products sold at the time the warranty expires for the systems. In 2009, 2008, and 2007, we recorded favorable adjustments to warranty expense of approximately $596,000, $699,000 and $128,000, respectively. At the end of 2009, we performed a detailed analysis of our reserves for warranties and believed it was a reasonable estimate of future warranty costs for existing tools. With the closing of the Divestiture, HPR Global is expected to assume these warranty liabilities.
 
Accounting for Income Taxes

Income taxes have been provided using the liability method. A deferred tax asset or liability is determined based on the difference between the financial statement and tax basis of assets and liabilities as measured by the enacted tax rates that will be in effect when these differences reverse. We use various assumptions in calculating the estimated deductions and benefit and research expense credits, etc. We also recognize the impact of an uncertain income tax position on the income tax return at the largest amount that is more-likely-than-not to be sustained upon audit by the relevant taxing authority accordingly to the authoritative guidance on accounting for uncertainty in income taxes.  An uncertain income tax position will not be recognized if it has less than a 50% likelihood of being sustained. We consider the realizability of deferred tax assets and record valuation allowances when uncertainties related to the realization of such net deferred tax assets exist. In 2008, we recorded a valuation allowance of $12.5 million against deferred tax assets that are less than 50% likely to be recognized. In 2009, due to the changes of circumstances as discussed under the heading “Provision for Income Taxes” in this section, we released federal valuation allowance of $3.0 million.


Foreign Currency Translation

We translate the assets and liabilities of our international non-U.S. dollar functional currency subsidiaries into U.S. dollars at the rates of exchange in effect on the balance sheet date. Revenue and expenses are translated using rates that approximate those in effect during the period. Translation adjustments are included in stockholders’ equity in the Consolidated Balance Sheet caption “Accumulated other comprehensive income.” Currency transaction losses derived from monetary assets and liabilities stated in a currency other than the functional currency and recognized in results of operations were $410,000, $2.0 million, and $162,000 for the years ended December 31, 2009, 2008 and 2007, respectively. The effect of foreign currency rate changes on cash and cash equivalents was an increase of $86,000 in 2009 and decreases of $172,000, and $498,000 in the years ended December 31, 2008 and 2007, respectively.

Deferred Costs

Occasionally we enter into software consulting service and tools product arrangements under which all the revenue is deferred until certain elements of the arrangements are delivered in the future. Management considers the guidance under which the revenue recognition falls to determine the cost recognition, as well as the realizability, of the deferred cost. Management believes recognizing deferred costs in the same period that revenue is recognized will provide investors a clearer view of the profitability of the contracts. As a result, we defer the direct variable expense, not exceeding the revenue deferred, in other current assets on the balance sheet until the period when revenue is recognized. Direct and incremental variable expenses include direct labor costs and direct services contracts with third parties working on the software service arrangements. As of December 31, 2009 and 2008, we deferred approximately $880,000 and $2.2 million, respectively, of direct and incremental variable expenses related to software consulting service and tools product arrangements where the revenue is deferred until future periods.

Results of Operations

Revenue
   
2009
   
2008
   
2007
 
(in thousands, except for percentages)
 
Amount
   
Change over Previous Year
   
Amount
   
Change over Previous Year
   
Amount
 
Service
  $ 70,542       (6 %)   $ 74,892       27 %   $ 59,034  
Product
    23,888       (5 %)     25,033       (28 %)     34,898  
License fees, content and royalties
    56,016       (5 %)     59,120       90 %     31,140  
Total revenue
  $ 150,446       (5 %)   $ 159,045       27 %   $ 125,072  
 
 
Total revenue declined from 2008 to 2009 primarily due to lower consulting service revenue in Symyx Software as customers reduced their consulting projects, lower service revenue in HPR due to the expiration of our primary agreement with ExxonMobil in May 2008, and lower content revenue.

Total revenue increased 27% from 2007 to 2008 due to the increase in Symyx Software revenue from the MDL acquisition in October 2007, partially offset by a decrease in research revenue from ExxonMobil and, to a lesser extent, Dow, pursuant to their respective alliance agreements with Symyx, and lower HPR tools revenue as tools came under pressure in the second half due to customer delays and cancellations in a worsening economy.


Revenue is attributed to the following geographic locations based on the physical location of our customers (as a percentage of total revenue in the respective periods):

   
2009
   
2008
   
2007
 
United States
    62 %     64 %     88 %
Europe
    27 %     26 %     9 %
Asia
    10 %     9 %     3 %
Rest of the World
    1 %     1 %     *  
Total
    100 %     100 %     100 %
* Less than 1%
                       


International revenue increased significantly in 2008 and 2009 when compared to 2007 due to the MDL acquisition, which significantly expanded our life sciences customer base and increased our presence in Europe and in Japan.

The following table lists our major customers for the years ended December 31, 2009, 2008 and 2007 and revenue generated from these customers as a percentage of our total revenue in the respective periods. We expect that a significant portion of our revenue will continue to be generated from a few key customers, though with the MDL acquisition we substantially reduced the concentration of our customer base.

   
2009
   
2008
   
2007
 
ExxonMobil
    9 %     15 %     29 %
Dow
    17 %     18 %     28 %
Total
    26 %     33 %     57 %


For 2010, with the divestiture of our HPR business unit, we expect both Dow and ExxonMobil will account for less than 10% of total revenue (mostly software revenue) because the majority of ExxonMobil and Dow revenue was included in the HPR business unit.

The following depicts revenue by business segments:

   
2009
   
2008
   
2007
 
(in thousands, except for percentages)
 
Amount
   
Change over Previous Year
   
Amount
   
Change over Previous Year
   
Amount
 
Symyx Software
  $ 88,607       (6 %)   $ 94,200       195 %   $ 31,893  
Symyx HPR
    61,839       (5 %)     64,845       (30 %)     93,179  
Total
  $ 150,446       (5 %)   $ 159,045       27 %   $ 125,072  
 
 
Symyx Software generates revenue primarily from the licensing of software, including our ELN and LEA products and the Isentris platform, content subscriptions, and providing associated support, maintenance and consulting services.Symyx Software revenue decreased from 2008 to 2009 due primarily to lower software consulting service revenue as our customers reduced their software consulting projects, partially offset by increase in software maintenance revenue as we continue to expand our customer base. Symyx Software revenue increased from 2007 to 2008, driven by products acquired through the MDL acquisition and related services.


Symyx HPR generates revenue primarily from providing directed and collaborative research services and selling tools and associated services, and to a lesser extent, licensing materials and intellectual property. The decrease in Symyx HPR revenue in 2009 from 2008 resulted from the decrease in service revenue, product sales and maintenance revenue, slightly offset by increased royalties and license fees. The decrease in Symyx HPR revenue in 2008 from 2007 resulted from the decrease in service revenue, product sales and license fees. The decrease of Symyx HPR service revenue was driven primarily by the expiration of the collaborative research component of our alliance with ExxonMobil on May 31, 2008. In addition, the decrease in product sales revenue in 2008 compared to 2007 was primarily due to customer delays and cancellations in the second half of the year and, to a lesser degree, lower tools revenues for the year from ExxonMobil and Dow versus the prior year. During the years ended December 31, 2009, 2008 and 2007, we shipped 19, 18 and 41 tools, respectively, to chemical, life science, academic and other customers.
 
As a result of the Divestiture, we expect our revenue in 2010 to be materially below our revenue for 2009.
 
Costs of Revenue

   
2009
   
2008
   
2007
 
(in thousands, except for percentages)
 
Amount
   
Change over Previous Year
   
Amount
   
Change over Previous Year
   
Amount
 
Costs of revenue:
                             
Cost of service
  $ 26,012       23 %   $ 21,094       135 %   $ 8,995  
Cost of products
    10,806       3 %     10,444       -27 %     14,281  
Cost of license fees, content and royalties
    5,649       -4 %     5,876       231 %     1,773  
Amortization of intangible assets
    5,909       -20 %     7,355       90 %     3,873  
Total costs of revenue
  $ 48,376       8 %   $ 44,769       55 %   $ 28,922  
 
 
Total costs of revenue represented 32%, 28% and 23%, respectively, of total revenue for 2009, 2008 and 2007. The increase in costs of revenue as a percentage of total revenue in 2009 from 2008 was due primarily to incremental expenses from the HPR formulations business resulting from our IntegrityBio acquisition, which as a service business not at scale, had substantially lower margins than our other business lines.  To address underperformance in CDMO, and to address the anticipated decline in research services following the December 2009 expiration of research commitments from Dow and ExxonMobil, we announced the October 2009 Restructuring plan as detailed in Note 13 of the Notes to Consolidated Financial Statements. The increase in costs of revenue as a percentage of total revenue in 2008 from 2007 was due primarily to the substantial increase in software consulting services in 2008 following the October 2007 acquisition of MDL.

The table below depicts the gross profit margin by each revenue category:

   
2009
   
2008
   
2007
 
Cost of service as a percentage of service revenue
    37 %     28 %     15 %
Cost of products as a percentage of product sales
    45 %     42 %     41 %
Cost of license fees, content and royalties as a percentage of license fees, content and royalties revenue
    10 %     10 %     6 %


Cost of service includes certain operating expenses related to software consulting and software and hardware maintenance and costs associated with research services for life science and chemical and energy industries. Cost of service increased from 2008 to 2009 due to the incremental costs from the acquisition of IntegrityBio in August 2008, increase in research service costs for new research contracts (in contrast, under our alliance arrangements, a substantial component of the costs to perform research was recorded as R&D expense). Cost of service increased significantly from 2007 to 2008 primarily due to the substantial increase in software consulting services in 2008 following the October 2007 acquisition of MDL.


Cost of products sold in 2009 was $10.8 million or 45% of product sales revenue, compared to $10.4 million or 42% of product sales revenue in 2008 and $14.3 million or 41% of product sales revenue in 2007. The fluctuation in the total cost of products sold in the past three years was primarily due to the change in the numbers of tools sold and changes in product mix, as well as write-downs for excess and obsolete inventory of $562,000 and $1.2 million, respectively, in 2009 and 2008 primarily due to customer delays and cancellations. As a result of the Divestiture, we expect our cost of products to be substantially reduced in 2010 in both dollars and percentage terms, as Symyx Software generally carries higher gross margins than Symyx HPR.
 
The majority of our tools are built to order or to particular specifications. We generally charge the development costs incurred prior to the commercial production of these systems to research and development expenses, resulting in a lower cost of products sold and a higher margin for these systems. Therefore, the cost of products sold as a percentage of product sales may fluctuate significantly from period to period due to variability of product mix.

The cost of products sold may also be affected by adjustments to the reserves for warranties. When actual warranty costs are lower than our estimates, the difference will have a favorable impact to cost of products sold at the time the warranty expires for the systems. When actual warranty costs are anticipated to be higher than our original estimates, an additional expense is charged to cost of products sold in the period when such a determination is made. In 2009, 2008 and 2007, we made favorable adjustments to reserves for warranties of $596,000, $699,000, and $128,000, respectively.

Cost of license fees, content and royalties consists primarily of royalties we pay for third-party content we include in our content subscription offerings and of personnel-related costs from our internal content support group.

Amortization of intangible assets consisted of amortization of developed technology, license agreement and proprietary content from various acquisitions in previous years. The gross and net carrying cost of these intangible assets can be found in Note 11 of the Notes to Consolidated Financial Statements.

Operating Expenses
 
         
2009
         
2008
   
2007
 
(in thousands, except for percentages)
 
Amount
   
As a Percentage of Total Revenue
   
Change over Previous Year
   
Amount
   
As a Percentage of Total Revenue
   
Change over Previous Year
   
Amount
   
As a Percentage of Total Revenue
   
Change over Previous Year
 
Research and development
  $ 52,350       35 %     (31 %)   $ 75,365       47 %     14 %   $ 66,186       53 %     12 %
Sales, general and administrative
    45,071       30 %     (17 %)     54,589       34 %     30 %     41,935       33 %     22 %
Restructuring charges
    2,578       2 %     (48 %)     4,952       3 %  
na
      -       0 %  
na
 
Impairment to goodwill, intangibles and other long-lived assets
    327       0 %     (100 %)     90,330       57 %  
na
      -       0 %  
na
 
Acquired in-process research and development
    -       0 %  
na
      -       0 %     (100 %)     2,500       2 %     80 %
Amortization of intangible assets
    5,791       4 %     (2 %)     5,903       4 %     162 %     2,253       2 %     33 %
Total operating expenses
  $ 106,117       71 %     (54 %)   $ 231,139       145 %     105 %   $ 112,874       90 %     17 %
 
Research and Development (R&D) Expenses

Our R&D expenses consist primarily of salaries and other personnel-related expenses, facility costs, supplies and depreciation of facilities and laboratory equipment.

Research and development includes those activities performed on behalf of some of our alliance partners including Dow and ExxonMobil. These activities contribute to multiple revenue streams, such as research service revenue, product sales revenue and royalty revenue. Because we do not track fully burdened R&D costs or capital expenditures by project and to allocate these costs into various revenue streams, these R&D amounts are not included in costs of service. However, based on hours spent on each project, we estimate the R&D efforts undertaken for various projects were as follows:

 
   
2009
   
2008
   
2007
 
Customer-sponsored projects
    28 %     37 %     55 %
Internally-funded projects
    72 %     63 %     45 %
Total
    100 %     100 %     100 %
 
Our customer-sponsored R&D efforts as a percentage of total R&D efforts decreased significantly from 2007 to 2008 and to 2009 due to the expiration of our principal agreement with ExxonMobil in May 2008, and the significant expansion of our internally-funded software development workforce from the October 2007 MDL acquisition.

The significant decrease in R&D expenses in 2009 from 2008 was driven primarily by lower salary-related expenses resulted from the reduction in the force we implemented at the end of 2008, and to our continuing focus on reducing operating expenses in 2009. The increase of R&D expenses in 2008 over 2007 resulted primarily from additional salary-related expenses and consulting fees related to our expanded software development activities following the MDL acquisition.

R&D expenses as a percentage of total revenue decreased in 2009 compared to 2008 despite a 5% decrease in revenue in 2009 due to our fourth quarter 2008 restructuring and continuing cost control efforts in 2009, and to a lesser degree, the fact that research services costs for new research contracts in 2009 were reported in cost of sales. R&D expenses as a percentage of total revenue decreased in 2008 compared to 2007 due to the significant increase in revenue driven by the MDL acquisition and the fact that R&D as a percentage of revenue is lower in our software business than in our other business lines. With the Divestiture of our HPR business unit, we expect customer-sponsored R&D projects will be nominal, and that our R&D expenses will decline significantly in 2010.  We will continue to focus on innovation and development of our software product lines, and expect our R&D as a percentage of revenue to be at or below 2009.

Sales, General and Administrative (SG&A) Expenses

Our SG&A expenses consist primarily of personnel costs for sales, business development, legal, general management, finance and human resources, as well as payments of commissions to our sales personnel and professional expenses, such as legal and accounting. The decrease in SG&A expenses from 2008 to 2009 reflected the impact of our restructuring plan implemented at the end of 2008 and our continuing cost control efforts in 2009. The increase in SG&A expenses in 2008 was primarily due to the inclusion of personnel costs for employees from the MDL acquisition for the full fiscal year.

SG&A expenses represented 30%, 34%, and 33% of total revenue for years ended December 31, 2009, 2008 and 2007, respectively. The decrease in SG&A expenses as a percentage of total revenue from 2008 to 2009 reflected the impact of our restructuring plan implemented at the end of 2008 and our continuing cost control efforts in 2009. The increase in SG&A expenses as a percentage of total revenue from 2007 to 2008 was primarily due to an annual salary increase and higher marketing expenditures.

With the Divestiture, we expect our 2010 SG&A expenses to be substantially lower in dollar terms, but materially higher as a percentage of revenue due to lower revenues in 2010 and to the fact that certain expenses, such as those associated with being a public company, cannot readily be proportionately reduced following the Divestiture.

Restructuring Charges

Restructuring charges recorded in 2009 consisted of (i) $1.6 million associated with the October 2009 Restructuring commenced in the fourth quarter, (ii) $710,000 of severance costs as part of a plan to consolidate our offshore software development activities and facilities exit costs relating to the closure of our UK office, and (iii) various adjustments totaling $250,000 related to previous-year restructuring plans.

On December 3, 2008, in order to realign our operations to drive performance and improve operating efficiency, we implemented a reorganization plan to combine Symyx Tools and Symyx Research to create Symyx HPR.  The 2008 Plan included a worldwide reduction in force of approximately 90 employees and the consolidation of certain facilities. We recorded total restructuring charges of $5.0 million in the fourth quarter of 2008, consisting of $3.7 million of severance and one-time benefits and $1.3 million of exit costs of facilities, write-off of related fixed assets and associated legal costs.


Impairment to Goodwill, Intangibles and Other Long-lived Assets

As discussed in Note 1 of the Notes to Consolidated Financial Statements, and in connection with our 2008 annual impairment analysis of goodwill and assessment of indicators of impairment related to intangible and other long-lived assets, we determined that the value of our goodwill, intangible assets and other long-lived assets has been impaired primarily due to the significant decline of our market capitalization. Accordingly, in the fourth quarter of 2008, we recorded impairment charges of $90.3 million, which included $76.5 million to goodwill, $2.6 million to intangible assets and $11.3 million to fixed assets.

In 2009, we recorded a payable of $327,000 in connection with the 2008 IntegrityBio acquisition, representing a portion of the earn-out provided in the acquisition agreement that was based on the September and October 2009 revenue recognized from the IntegrityBio operations. This liability, if determinable at the time of acquisition, would have been recorded to goodwill as part of the purchase price. We assessed the recoverability of these amounts under the current circumstances and concluded that the goodwill resulting from the additional purchase consideration earned should be impaired in 2009.

Acquired In-Process Research and Development

In October 2007, we acquired MDL in a transaction accounted for as a business combination using the purchase method. The preliminary purchase price was allocated to the assets acquired, including intangible assets, based on their estimated fair values. The intangible assets include approximately $2.5 million for acquired in-process technology for projects that did not have future alternative uses. We determined the value of the purchased in-process technology using the income approach. At the date of the MDL acquisition, the development of these projects had not yet reached technological feasibility, and the technology in process had no alternative future uses. Accordingly, these costs were expensed at the acquisition date in 2007.

Amortization of Intangible Assets

In connection with various acquisitions, we have recorded an aggregate of $81.2 million of intangible assets (See Note 11 of the Notes to Consolidated Financial Statements). These intangible assets are being amortized on a straight-line basis over the estimated useful lives of the assets.  The amortization of intangible assets associated with trade name, customer relationship, bargain lease and non-compete agreement is recorded as operating expenses.

Gain (loss) from Sales of Businesses

In connection with exiting the CDMO business, we recorded a loss of $2.0 million in 2009. In 2008, we recorded an additional gain of $4.9 million upon the release of a holdback related to the sale of an approximately 10% equity interest in Ilypsa, Inc., for which we had previously recorded a $40.8 million gain in 2007.

Interest and Other Income, Net

Interest and other income, net, for the years ended December 31, 2009, 2008 and 2007 consisted of interest income of approximately $61,000, $871,000 and $5.9 million, respectively. Interest income represents interest income earned on our cash, cash equivalents and marketable securities. Interest income decreased in 2009 compared to 2008 due to the significant decrease in average interest rates as we elected to hold our cash in highly liquid, highly secure investments. Interest income decreased in 2008 from 2007 due to the significant decrease in our average investment balance after the MDL acquisition and the impact of decreasing average interest rates. Other expense for 2009 consisted of a $410,000 foreign currency loss. Other expense for 2008 consisted of $2.0 million in foreign currency losses, partially offset by a $1.6 million gain from the sale of our Occupational Health Service (OHS) business in May 2008. We recorded a significant amount of foreign currency losses in 2008 due to increased foreign operations after the MDL acquisition and the material fluctuation of foreign currency exchange rates during 2008. Foreign currency loss was lower in 2009 compared to 2008 due to lower cash and other monetary assets and liabilities stated in a currency other than the functional currency.


Provision for Income Taxes

We recorded income tax benefits of $5.1 million in 2009 and $5.2 million in 2008, and income tax expenses of $10.7 million in 2007. Our effective income tax rate was 82% for 2009, 5% for 2008 and 36% for 2007. The effective income tax benefit rate was significantly higher than our statutory combined federal and state rate of 40% in 2009 due to the release of $3.0 million of federal valuation allowance principally related to certain deferred tax assets that were realized in connection with the sale of the CDMO business and the acceleration of certain fixed asset depreciable lives in connection with our cost segregation study discussed below. Additionally, we recorded a tax benefit of $813,000 from the release of liabilities accrued for uncertain tax positions due to the expiration of the related statute of limitation periods. The effective income tax benefit rate was lower than our statutory combined federal and state rate of 40% in 2008 due to the non-deductibility of the majority of goodwill impairments and a $12.5 million valuation allowance for deferred tax assets. The effective income tax rate was lower than our statutory combined federal and state rate of 40% in 2007 due to income tax benefits from research and development credits and tax-exempt interest income.

We record income tax expense using the asset and liability method. We recognize deferred tax assets and liabilities for the expected future tax consequences attributable to temporary differences between amounts reported for income tax purposes and financial statement purposes, using current tax rates. We recognize a valuation allowance if we anticipate that some or all of a deferred tax asset will not be realized. We must assess the likelihood that our deferred tax assets will be recovered from future taxable income and, to the extent that we believe that recovery is not likely, we must establish a valuation allowance. Significant management judgment is required in determining the provision for income taxes, deferred tax assets and liabilities and any valuation allowance recorded against net deferred tax assets. At December 31, 2008, we recorded a valuation allowance of $12.5 million as a result of uncertainties related to the realization of our net deferred tax assets. We established the valuation allowance as a result of weighing all positive and negative evidence, including our history of cumulative losses over the past three years and the difficulty of forecasting sufficient future taxable income. The valuation allowance reflects the conclusion of management that it is more likely than not that the benefit from certain deferred tax assets will not be realized. If the actual results differ from these estimates or these estimates are adjusted in future periods, the valuation allowance may require adjustment which could materially impact our financial position and results of operations.

In 2009, we conducted a study of the tax depreciable lives for certain of our fixed assets placed in service after January 1, 2002. Using the result of the study, we reassessed the valuation allowance associated with certain federal deferred tax assets and released $2.0 million of such allowance in the third quarter of 2009. Additionally we exited our CDMO business in the fourth quarter of 2009. In connection with this transaction, we released an additional $1.0 million of the federal valuation allowance. With respect to state taxes, we recorded a net increase of valuation allowance of $707,000 against increased state deferred tax assets. At the end of 2009, the balance of our valuation allowance was $10.2 million.

On January 1, 2007, we adopted the authoritative guidance on accounting for uncertainty in income taxes.  As of December 31, 2009, our total unrecognized tax benefits were $3.2 million, of which $379,000 of tax benefits, if recognized, would affect the effective income tax rate. We do not anticipate the total amounts of unrecognized income tax benefits will significantly increase or decrease in the next 12 months.

Recent Accounting Pronouncements
   
FASB Accounting Standard Update (ASU) No. 2010-06, Improving Disclosures about Fair Value Measurements, requires disclosures about inputs and valuation techniques used to measure fair value as well as disclosures about significant transfers, beginning in the first quarter of 2010. Additionally, these amended standards require presentation of disaggregated activity within the reconciliation for fair value measurements using significant unobservable inputs (Level 3), beginning in the first quarter of 2011. We do not expect these new standards to significantly impact our consolidated financial statements.
   
    FASB ASC No. 810, Amendments to FASB Interpretation No. 46(R) (ASC 810, and formerly referred to as SFAS No. 167), makes significant changes to the model for determining who should consolidate a variable interest entity, and also addresses how often this assessment should be performed. ASC 810 will be effective for us beginning in the first quarter of 2010. We are assessing the impact of the adoption of this standard on our financial statements particularly in connection with the divestiture of the HPR business.


FASB ASU No. 2009-13, Revenue Recognition: Multiple-Deliverable Revenue Arrangements—a consensus of the FASB Emerging Issues Task Force, which eliminates the use of the residual method for allocating consideration, as well as the criteria that require objective and reliable evidence of fair value of undelivered elements in order to separate the elements in a multiple-element arrangement. By removing the criteria requiring the use of objective and reliable evidence of fair value in separately accounting for deliverables, the recognition of revenue will more closely align with certain revenue arrangements. The standard also will replace the term "fair value" in the revenue allocation guidance with "selling price" to clarify that the allocation of revenue is based on entity-specific assumptions rather than assumptions of a marketplace participant. ASU No. 2009-13 is effective for revenue arrangements entered or materially modified in fiscal years beginning on or after June 15, 2010.  We are electing early adoption as of January 1, 2010 and are assessing the potential impact of this standard.

FASB ASU No. 2009-14, Software: Certain Revenue Arrangements that Include Software Elements—a consensus of the FASB Emerging Issues Task Force, which will significantly improve the reporting of certain transactions to more closely reflect the underlying economics of the transactions. By excluding from its scope certain software-enabled devices, multiple-element arrangements that include such software-enabled devices will now be evaluated for separation and allocation using the guidance in ASU No. 2009-13 (described above). ASU No. 2009-14 is effective for revenue arrangements entered or materially modified in fiscal years beginning on or after June 15, 2010. Early adoption as of January 1, 2010 is permitted but is not being elected by us. We are currently assessing the potential impact of this standard.

Liquidity and Capital Resources

This section discusses the effects of the changes in our balance sheets, cash flows and commitments on our liquidity and capital resources.

Balance Sheet and Cash Flows

We had positive cash flow from operating activities for the year ended December 31, 2009. We ended fiscal year 2009 with cash and cash equivalents of approximately $81.8 million as compared to cash and cash equivalents of approximately $66.4 million at December 31, 2008.

Our operating activities provided $18.4 million and $28.4 million of cash in 2009 and 2008, respectively, and used $14.7 million of cash in 2007. The sources of cash for the three years were primarily the receipt of funding from research partners, payments from product sales and licensing and service fees. Our days of sales outstanding in 2009, 2008 and 2007 were 30, 40 and 58 days, respectively. Our cash flow from operating activities in 2009 was lower than in 2008 due to the relatively higher collection of payments in early 2008 for tools shipped in the fourth quarter of 2007.  In 2007, we paid approximately $20.9 million in income taxes, of which the majority was related to the gain from the Ilypsa transaction (described below). Because this tax payment was recorded against operating cash flow while the original sales proceeds were recorded as investing cash flow, our cash flow from operating activities was negative for 2007.
 
We currently expect net positive operating cash flow for 2010, but that operating cash flow will be seasonally positive in the first half of the year when the majority of our software license and maintenance agreements and content subscriptions renew, and negative in the second half of the year.  

$571,000, $42,000 and $163,000 of excess tax benefits for the years ended December 31, 2009, 2008 and 2007, respectively, have been classified as an operating cash outflow and a financing cash inflow.

Net cash used in investing activities was $5.0 million and $111,000 in 2009 and 2008, respectively. Net cash from investing activities was $15.4 million in 2007. Cash used in investing activities in 2009 was principally comprised of the purchase of property, plant and equipment. Included in the cash used in investing activities for 2008 were net cash payments for the IntegrityBio acquisition of $10.2 million and an additional investment in Intermolecular of $1.6 million, partially offset by a $5.0 working capital adjustment in connection with the MDL acquisition and additional proceeds of $4.8 million received in 2008 from the sale of our Ilypsa equity interests in 2007. Included in the cash from investing activities for 2007 were net proceeds of $109.0 million from marketable securities, proceeds from the sale of Ilypsa equity interest of $41.2 million, partially offset by a net cash payment for MDL acquisition of $125.9 million. Cash used in purchases of property, plant and equipment was $5.0 million, $7.1 million and $7.7 million, respectively, in 2009, 2008 and 2007.


Financing activities provided $2.0 million, $1.2 million and $745,000 of cash in 2009, 2008 and 2007, respectively. The cash inflows were primarily the proceeds from the exercise of stock options and sale of stock under the Employee Stock Purchase Plan in each of 2009, 2008 and 2007, and excess tax benefits from stock-based compensation. Cash outflows from financing activities in 2009, 2008 and 2007 included approximately $535,000, $499,000 and $2.0 million, respectively, payments of employee withholding tax in lieu of issuing common stock upon the vesting of restricted stock units.

On September 28, 2007, we entered into a Credit Agreement (the Credit Agreement) with Bank of America, N.A., as Administrative Agent and L/C Issuer (the Agent), and each lender from time to time a party thereto. Under the Credit Agreement, the Agent agreed to provide a $25 million aggregate commitment for a two-year revolving credit facility and issuances of letters of credit for Symyx (the Facility), secured by substantially all of our assets excluding intellectual property. In March 2009, we entered into an amendment to the Facility with the Agent which lowered the Consolidated Net Worth covenant amount for future measurement dates. In August 2009, we entered into the second amendment to the Credit Agreement in which the Agent consented to the legal consolidation of our U.S. operations. In September 2009, we entered into the third amendment to extend the term of the Credit Agreement until March 1, 2010. As of December 31, 2009, we were in compliance with the amended covenants in the Credit Agreement and had no borrowings under the Facility other than a standby letter of credit of $780,000 to secure a customer deposit.

We believe our current cash, cash equivalents and marketable securities, our bank credit facility, and the cash flows generated by operations will be sufficient to satisfy our anticipated cash needs for working capital, capital expenditures, investment requirements, and other liquidity requirements associated with our existing operations for at least the next twelve months. Nonetheless, we may be required to raise additional funds through public or private financing, collaborative relationships or other arrangements. We cannot provide assurance that additional funding, if sought, will be available or be on terms favorable to us. Further, any additional equity financing may be dilutive to stockholders, and debt financing, if available, may involve restrictive covenants which may restrict our business. Collaborative arrangements and licensing may require us to relinquish our rights to some of our technologies or products. Our failure to raise capital when needed, or on terms favorable to us, may harm our business and operating results.

Contractual Commitments

Our contractual commitments consist of our obligations under operating leases (Facility Commitments), our commitments to purchase inventory and fixed assets and services (Purchase Commitments), and our commitments for royalty payments (Royalty Commitments, due when we receive customer payments). As of December 31, 2009 and 2008, our contractual commitments were $31.7 million and $34.4 million, respectively. The decrease in our contractual commitments in 2009 was due to facility lease payments made in 2009, partially offset by commitments from our various new leases. We expect to satisfy these obligations as they become due over the next seven years.

Future principal commitments as of December 31, 2009 were as follows (in thousands):

   
Total
   
Less than 1 Year
   
1-3 Years
   
3-5 Years
   
More Than 5 Years
 
Facility Commitments
  $ 25,607     $ 4,793     $ 8,854     $ 8,144     $ 3,816  
Purchase Commitments
    4,992       4,992       -       -       -  
Royalty Commitments
    1,104       1,069       35       -       -  
Total
  $ 31,703     $ 10,854     $ 8,889     $ 8,144     $ 3,816  


Due to the expected Divestiture, we are in the process of canceling/transferring certain purchase commitments totaling approximately $1.8 million.

Estimated future rents receivable from sublease agreements through 2012, not included above, amount to approximately $457,000. If the Divestiture closes, we expect additional rent receivable from the sublease to HPR Global to be approximately $3.5 million through October 31, 2015.

Other Commitments

As of December 31, 2009, we carried a $2.3 million accrued liability associated with uncertainties in income taxes. We are unable to make reasonably reliable estimates of the periods of any cash settlement with the respective tax authorities and have recorded the liability as a long-term payable on our Consolidated Balance Sheets.

Customer Indemnification

From time to time, we agree to indemnify our customers against certain third party liabilities, including liability if our products infringe a third party’s intellectual property rights. We account for such indemnification provisions in accordance with the authoritative guidance on guarantor’s accounting and disclosure requirements for guarantees, including indirect guarantees of indebtedness of others. Other than for limited exceptions (e.g., intellectual property indemnity or bodily harm), our indemnification obligation in these arrangements is typically limited to no more than the amount paid by the customer. As of December 31, 2009, we were not subject to any pending intellectual property-related litigation. We have not received any requests for and have not been required to make any payments under these indemnification provisions during any periods covered in these consolidated financial statements.

Insurance

We carry insurance with coverage and coverage limits that we believe to be adequate. Although there can be no assurance that such insurance is sufficient to protect us against all contingencies, our management believes that our insurance protection is reasonable in view of the nature and scope of our operations.

Off-Balance Sheet Arrangements

We have not entered into any off-balance sheet financing arrangements and have not established any special purpose entities as of December 31, 2009. We have not guaranteed any debt or commitments of other entities or entered into any options on non-financial assets.

ITEM 7A.  QUANTITATIVE AND QUALITATIVE DISCLOSURES ABOUT MARKET RISK

Foreign Currency Risk
 
We do not use derivative instruments to manage risks associated with foreign currency transactions in order to minimize the impact of changes in foreign currency exchange rates on earnings. We provide our products and services to customers in the United States, Europe and elsewhere throughout the world. Sales are primarily made in U.S. dollars, and to a lesser but increasing extent, Swiss francs, Euros, Japanese yen, and British pounds. A strengthening of the U.S. dollar could make our products less competitive in foreign markets.
 
 
Our exposure to foreign exchange rate fluctuations also arises in part from inter-company accounts with our foreign subsidiaries. These inter-company accounts are typically denominated in the functional currency of the foreign subsidiary, and, when re-measured and translated in U.S. dollars, have an impact on our operating results depending upon the movement in foreign currency rates. During fiscal 2009, our total realized and unrealized gains due to movements in foreign currencies, primarily Swiss francs, Euros, Japanese yen and British pounds was $410,000. As exchange rates vary, these foreign exchange results may vary and adversely or favorably impact operating results. An unfavorable change of 10% in foreign currency rates would have a material impact on our financial statements.
Interest Rate Risk

In both 2009 and 2008 we maintained our cash in treasury-bill money market funds, classified as cash and cash equivalents, and at December 31, 2009 did not have any short term investments.  As a result, we have minimal exposure to interest rate changes.


ITEM 8.  FINANCIAL STATEMENTS AND SUPPLEMENTARY DATA

Index to Consolidated Financial Statements
Page
   
Report of Independent Registered Public Accounting Firm
48
Consolidated Balance Sheets at December 31, 2009 and 2008
49
Consolidated Statements of Operations for the Years Ended December 31, 2009, 2008 and 2007
50
Consolidated Statements of Stockholders' Equity for the Years Ended December 31, 2009, 2008 and 2007
51
Consolidated Statements of Cash Flows for the Years Ended December 31, 2009, 2008 and 2007
52
Notes to Consolidated Financial Statements
54


Report of Independent Registered Public Accounting Firm
 
The Board of Directors and Shareholders of Symyx Technologies, Inc.
 
We have audited the accompanying consolidated balance sheets of Symyx Technologies, Inc. as of December 31, 2009 and 2008, and the related consolidated statements of operations, stockholders' equity, and cash flows for each of the three years in the period ended December 31, 2009. These financial statements are the responsibility of the Company's management. Our responsibility is to express an opinion on these financial statements based on our audits.

We conducted our audits in accordance with the standards of the Public Company Accounting Oversight Board (United States). Those standards require that we plan and perform the audit to obtain reasonable assurance about whether the financial statements are free of material misstatement. An audit includes examining, on a test basis, evidence supporting the amounts and disclosures in the financial statements. An audit also includes assessing the accounting principles used and significant estimates made by management, as well as evaluating the overall financial statement presentation. We believe that our audits provide a reasonable basis for our opinion.

In our opinion, the financial statements referred to above present fairly, in all material respects, the consolidated financial position of Symyx Technologies, Inc. at December 31, 2009 and 2008, and the consolidated results of its operations and its cash flows for each of the three years in the period ended December 31, 2009, in conformity with U.S. generally accepted accounting principles.

As discussed in Note 1 and Note 10 to the consolidated financial statements, Symyx Technologies, Inc. changed its method of accounting for uncertain income tax positions with the adoption of guidance originally issued in Financial Interpretation No. 48, Accounting for Uncertainty in Income Taxes – an interpretation of FASB Statement No. 109 (codified in FASB ASC Topic 740, Income Taxes) as of January 1, 2007.

We also have audited, in accordance with the standards of the Public Company Accounting Oversight Board (United States), Symyx Technologies, Inc.'s internal control over financial reporting as of December 31, 2009, based on criteria established in Internal Control-Integrated Framework issued by the Committee of Sponsoring Organizations of the Treadway Commission and our report dated February 26, 2010 expressed an unqualified opinion thereon.

 
/s/ Ernst & Young LLP
 
San Jose, California
 
February 26, 2010


SYMYX TECHNOLOGIES, INC.
CONSOLIDATED BALANCE SHEETS
(In thousands, except share and per share information)
 
   
December 31,
 
   
2009
   
2008
 
ASSETS
           
Current assets:
           
Cash and cash equivalents
  $ 81,777     $ 66,415  
Accounts receivable, net of allowance for doubtful accounts of $156 and $356, respectively
    12,793       11,993  
Inventories
    1,956       3,308  
Deferred tax assets, current
    3,850       2,227  
Income tax receivable
    4,848       6,549  
Other current assets
    5,586       6,351  
Total current assets
    110,810       96,843  
                 
Property, plant and equipment, net
    17,032       18,447  
Goodwill
    39,640       39,979  
Intangible assets, net
    40,650       53,268  
Long-term investments
    15,147       15,147  
Deferred tax and other assets
    3,529       3,901  
Total assets
  $ 226,808     $ 227,585  
                 
LIABILITIES AND STOCKHOLDERS’ EQUITY
               
Current liabilities:
               
Accounts payable
  $ 2,479     $ 3,056  
Other accrued liabilities
    7,408       9,947  
Accrued compensation and employee benefits
    9,379       9,377  
Accrued royalty
    3,944       3,628  
Income taxes payable
    -       567  
Current deferred tax liabilities
    107       778  
Accrued restructuring costs
    2,114       4,578  
Deferred revenue, current
    27,988       23,519  
Total current liabilities
    53,419       55,450  
                 
Long-term payable
    2,322       4,457  
Long-term deferred revenue
    5,556       7,421  
Noncurrent deferred tax liabilities
    8,777       8,174  
Total noncurrent liabilities
    16,655       20,052  
                 
Commitments (Note 3)
               
                 
Stockholders' equity:
               
Preferred stock, $0.001 par value, 10,000,000 shares authorized, issuable in series; no shares issued and outstanding
    -       -  
Common stock, $0.001 par value, 60,000,000 shares authorized and 34,692,061 and 34,014,660  shares issued and outstanding at December 31, 2009 and 2008, respectively
    35       34  
Additional paid-in capital
    213,493       207,690  
Accumulated other comprehensive gain
    2,591       2,606  
Accumulated deficits
    (59,385 )     (58,247 )
Total stockholders' equity
    156,734       152,083  
Total liabilities and stockholders’ equity
  $ 226,808     $ 227,585  
 
The accompanying notes are an integral part of these consolidated financial statements.


SYMYX TECHNOLOGIES, INC.
CONSOLIDATED STATEMENTS OF OPERATIONS
(In thousands, except per share amounts)

   
2009
   
2008
   
2007
 
Revenue:
                 
Service
  $ 70,542     $ 74,892     $ 59,034  
Product
    23,888       25,033       34,898  
License fees, content and royalties
    56,016       59,120       31,140  
Total revenue
    150,446       159,045       125,072  
                         
Costs of revenue:
                       
Cost of service
    26,012       21,094       8,995  
Cost of products
    10,806       10,444       14,281  
Cost of license fees, content and royalties
    5,649       5,876       1,773  
Amortization of intangible assets
    5,909       7,355       3,873  
Total costs of revenue
    48,376       44,769       28,922  
                         
Gross profit
    102,070       114,276       96,150  
                         
Operating expenses:
                       
Research and development
    52,350       75,365       66,186  
Sales, general and administrative
    45,071       54,589       41,935  
Restructuring charges
    2,578       4,952       -  
Impairment to goodwill, intangibles and other long- lived assets
    327       90,330       -  
Acquired in-process research and development
    -       -       2,500  
Amortization of intangible assets
    5,791       5,903       2,253  
Total operating expenses
    106,117       231,139       112,874  
                         
Loss from operations
    (4,047 )     (116,863 )     (16,724 )
Gain from sale of equity interest in Ilypsa, Inc.
    -       4,939       40,826  
Loss from sale of IntegrityBio business
    (2,009 )     -       -  
Interest and other income (expense), net
    (229 )     135       5,694  
Income before income tax benefit (expense) and equity loss
    (6,285 )     (111,789 )     29,796  
Income tax benefit (expense)
    5,147       5,173       (10,698 )
Equity in loss from investment in Visyx Technologies Inc.
    -       -       (314 )
Net income (loss)
  $ (1,138 )   $ (106,616 )   $ 18,784  
                         
Basic net income (loss) per share
  $ (0.03 )   $ (3.16 )   $ 0.57  
                         
Diluted net income (loss) per share
  $ (0.03 )   $ (3.16 )   $ 0.56  
                         
Shares used in computing basic net income (loss) per share
    34,321       33,747       33,199  
                         
Shares used in computing diluted net income (loss) per share
    34,321       33,747       33,557  

The accompanying notes are an integral part of these consolidated financial statements.


SYMYX TECHNOLOGIES, INC.
CONSOLIDATED STATEMENTS OF STOCKHOLDERS' EQUITY
(In thousands)
   
 
Preferred Stock
   
Common Stock
                         
   
Shares
   
Amount
   
Shares
   
Amount
   
Additional Paid-In Capital
   
Accumulated Other Comprehensive Gain (Loss)
   
Retained Earnings (Accumulated Deficits)
   
Total Stockholders’ Equity
 
Balance at January 1, 2007
    -     $ -       32,975     $ 33       197,823     $ (4 )   $ 30,524     $ 228,376  
Issuance of common stock on exercise of options
    -       -       96       -       629       -       -       629  
Issuance of common stock under employee share purchase plan
    -       -       219       1       1,908       -       -       1,909  
Issuance of common stock for vested restricted stock units, net
    -       -       208       -       (1,956 )     -       -       (1,956 )
Issuance of restricted common stock
    -       -       91       -       -       -       -       -  
Stock-based compensation
    -       -       -       -       5,702       -       -       5,702  
Tax deficiency from employee stock option plans
    -       -       -       -       (812 )     -       -       (812 )
Cumulative effect of adopting FIN 48
    -       -       -       -       (57 )     -       (939 )     (996 )
Comprehensive income:
                                                               
Net income
    -       -       -       -       -       -       18,784       18,784  
Unrealized gain on foreign currency translation
    -       -       -       -       -       628       -       628  
Unrealized loss on marketable securities
    -       -       -       -       -       (23 )     -       (23 )
Comprehensive income
                                                            19,389  
Balance at December 31, 2007
    -       -       33,589       34       203,237       601       48,369       252,241  
Issuance of common stock on exercise of options
    -       -       30       -       83       -       -       83  
Issuance of common stock under employee share purchase plan
    -       -       335       -       1,592       -       -       1,592  
Issuance of common stock for vested restricted stock units, net
    -       -       151       -       (499 )     -       -       (499 )
Cancellation of restricted common stock
    -       -       (91 )     -       -       -       -       -  
Stock-based compensation
    -       -       -       -       4,368       -       -       4,368  
Tax deficiency from employee stock option plans
    -       -       -       -       (1,091 )     -       -       (1,091 )
Comprehensive loss:
                                                               
Net loss
    -       -       -       -       -       -       (106,616 )     (106,616 )
Unrealized gain on foreign currency translation
    -       -       -       -       -       2,006       -       2,006  
Unrealized loss on marketable securities
    -       -       -       -       -       (1 )     -       (1 )
Comprehensive loss
                                                            (104,611 )
Balance at December 31, 2008
    -       -       34,014       34       207,690       2,606       (58,247 )     152,083  
Issuance of common stock on exercise of options
    -       -       113       -       432       -       -       432  
Issuance of common stock under employee share purchase plan
    -       -       362       1       1,487       -       -       1,488  
Issuance of common stock for vested restricted stock units, net
    -       -       202       -       (535 )     -       -       (535 )
Stock-based compensation
    -       -       -       -       4,400       -       -       4,400  
Tax benefit from employee stock option plans
    -       -       -       -       19       -       -       19  
Comprehensive loss:
                                                               
Net loss
    -       -       -       -       -       -       (1,138 )     (1,138 )
Unrealized loss on foreign currency translation
    -       -       -       -       -       (15 )     -       (15 )
Comprehensive loss
                                                            (1,153 )
Balance at December 31, 2009
    -     $ -       34,691     $ 35     $ 213,493     $ 2,591     $ (59,385 )   $ 156,734  

The accompanying notes are an integral part of these consolidated financial statements.


SYMYX TECHNOLOGIES, INC.
CONSOLIDATED STATEMENTS OF CASH FLOWS
(In thousands)

   
2009
   
2008
   
2007
 
Operating activities
                 
Net income (loss)
  $ (1,138 )   $ (106,616 )   $ 18,784  
Adjustments to reconcile net income (loss) to net cash provided by (used in) operating activities:
                       
Impairment of goodwill, intangibles and long-lived assets
    327       90,330       -  
Depreciation and amortization
    5,262       11,355       7,603  
Amortization of intangible assets arising from business combinations
    11,699       13,235       6,126  
Acquired in-process research and development
    -       -       2,500  
Stock-based compensation
    4,400       4,368       5,702  
Equity in loss from investment in Visyx Technologies Inc.
    -       -       314  
Gain from sale of equity interest in Ilypsa, Inc.
    -       (4,939 )     (40,826 )
Loss from sale of IntegrityBio business
    2,009       -       -  
Gain on sale of property, plant and equipment
    -       (1,606 )     -  
Deferred income taxes
    (967 )     (306 )     (3,534 )
Excess tax benefits from stock-based compensation
    (571 )     (42 )     (163 )
Tax benefit (deficiency) from employee stock transactions
    19       (1,091 )     (812 )
Changes in operating assets and liabilities, excluding effects of business acquisitions:
                       
Accounts receivable, net
    (806 )     11,978       (2,028 )
Inventories
    1,340       830       (1,397 )
Other current assets
    804       (1,590 )     (2,043 )
Other long-term assets
    (307 )     (106 )     607  
Accounts payable
    (578 )     852       (1,791 )
Other accrued liabilities
    (3,299 )     (15 )     1,991  
Accrued compensation and employee benefits
    (102 )     (2,034 )     97  
Accrued royalties
    648       (64 )     3,692  
Income taxes receivable and payable
    1,107       (3,896 )     (5,658 )
Accrued restructuring charges
    (2,010 )     2,913       (4,548 )
Deferred revenue
    2,661       15,062       648  
Long-term payable
    (2,135 )     (215 )     -  
Net cash provided by (used in) operating activities
    18,363       28,403       (14,736 )
                         
Investing activities
                       
Purchase of property, plant and equipment, net
    (5,043 )     (7,074 )     (7,712 )
Proceeds from divesting assets
    -       694       -  
Purchase of marketable securities
    -       -       (101,932 )
Proceeds from maturities of marketable securities
    -       8,400       202,900  
Proceeds from sales of marketable securities
    -       -       7,986  
Proceeds from sales of businesses
    -       4,778       41,238  
Long-term investments
    -       (1,647 )     (100 )
Acquisition of businesses, net of cash acquired
    -       (5,262 )     (125,910 )
Release of payment to shareholders of an acquired business
    -       -       (1,024 )
Net cash provided by (used in) investing activities
    (5,043 )     (111 )     15,446  
                         
Financing activities
                       
Proceeds from issuance of common stock
    1,920       1,675       2,538  
Payment of employee withholding tax in lieu of issuing common stock upon vesting of restricted stock units
    (535 )     (499 )     (1,956 )
Excess tax benefits from stock-based compensation
    571       42       163  
Net cash provided by financing activities
    1,956       1,218       745  
                         
Effect of foreign exchange rate changes on cash and cash equivalents
    86       (172 )     (498 )
Net increase in cash and cash equivalents
    15,362       29,338       957  
Cash and cash equivalents at beginning of year
    66,415       37,077       36,120  
Cash and cash equivalents at end of year
  $ 81,777     $ 66,415     $ 37,077  

 
   
2009
   
2008
   
2007
 
Supplemental disclosure of cash flow information
                 
Income taxes paid (refunded), net
  $ (3,962 )   $ 4,331     $ 20,940  
                         
Supplemental disclosure of non-cash investing and financing activities
                       
Net working capital adjustments receivable from the seller of an acquired business
  $ -     $ -     $ (4,954 )
Payable related to transaction costs for a business acquisition
  $ -     $ -     $ 562  
 
The accompanying notes are an integral part of these consolidated financial statements.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS
 

1.  Summary of Significant Accounting Policies

Business and Basis of Presentation

Symyx Technologies, Inc. (together with its wholly-owned subsidiaries, the Company or Symyx) enables global leaders in life sciences, chemical, energy, and consumer and industrial products to optimize and accelerate their scientific research and development (R&D). Through its abilities in scientific informatics management, workflow optimization, and micro-scale, parallel experimentation, Symyx helps companies transform their R&D operations to minimize the time their scientists spend on routine, repetitive tasks and to maximize their return on R&D investments.

Principles of consolidation

These consolidated financial statements include the accounts of the Company and its wholly-owned subsidiaries. Symyx accounts for equity investments in companies over which the Company has the ability to exercise significant influence, but does not hold a controlling interest, under the equity method, and the Company records its proportionate share of income or losses as other income (loss) in the consolidated statements of operations. The Company has eliminated all significant intercompany accounts and transactions.

The Company has evaluated subsequent events for recognition or disclosure through the time of filing these consolidated financial statements on Form 10-K with the U.S. Securities and Exchange Commission on February 26, 2010.

Use of Estimates

Preparing financial statements in accordance with US generally accepted accounting principles (GAAP) requires management to make estimates and assumptions that affect the reported amounts in Symyx’s consolidated financial statements and accompanying notes. Estimates include the assumptions used in determining the implied fair value of goodwill, intangibles and other long-lived assets, assumptions used to determine the stock-based compensation of our equity awards, including the volatility rate and the forfeiture rates for stock-based awards, reserve for excess or obsolete inventory, future warranty expenditures, significant management judgment required in determining the provision for income taxes, deferred tax assets and liabilities and any valuation allowance recorded against net deferred tax assets, the potential outcome of future tax consequences of events recognized in the our financial statements or tax returns, the foreign currency rate used in determining the effect of foreign currency exchange rate fluctuation on our financial statements and the accounting policies adopted to defer costs associated with various contracts.  The Company evaluates its estimates, including those mentioned above, on an ongoing basis. The Company bases its estimates on historical experience and on various other assumptions that it believes to be reasonable under the circumstances, the results of which form its basis for making judgments about the carrying value of assets and liabilities that are not readily apparent from other sources.  Actual results may differ from those estimates under different assumptions or conditions.

Reclassification

Certain reclassifications have been made to prior period amounts to conform to the current period presentation, as follows: (i) current deferred tax liabilities previously netted against current deferred tax assets have been reclassified as current liabilities; (ii) non-current deferred tax assets previously netted against non-current deferred  tax liabilities have been reclassified as noncurrent assets.

Cash and Cash Equivalents

The Company considers all highly liquid investments with maturities of three months or less on the date of purchase to be cash equivalents. Cash equivalents are carried at fair value. The Company’s total cash and cash equivalents were $81,777,000 and cost approximated fair value of any cash equivalents.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Investments

In 2008 and 2009, the Company maintained its cash in treasury-bill money market funds, classified as cash and cash equivalents. The Company did not have any marketable securities as of December 31, 2009.
 
The Company had no realized or unrealized gains or losses on its investments for the years ended December 31, 2009 and 2008.

The Company determines the accounting method used to account for investments in equity securities in which it does not have a controlling interest primarily based on the Company’s ownership of the investee and whether the Company has the ability to exercise significant influence over the strategic, operating, investing, and financing activities of the investee. Accordingly, the Company accounts for its investments in Intermolecular, Inc. using the cost method of accounting while it accounts for its November 2006 investment in Visyx Technologies Inc. (Visyx) using the equity method of accounting. At December 31, 2009, the carrying value of Intermolecular was $15,147,000. The Company determines that it is not practical to estimate the fair value of the investments in Intermolecular and believes that there are no identified events or changes in circumstances that may have a significant adverse effect on the fair value of the investments.

The Company owns approximately 38% of outstanding stock of Visyx as of December 31, 2009. At December 31, 2009, the carrying value of its investment in Visyx was $0. It did not receive any dividends from Visyx in the years ended December 31, 2009, 2008 and 2007.

Goodwill, Intangible Assets and Other Long-Lived Assets
 
Goodwill
 
According to the authoritative guidance on goodwill, the Company evaluated its operating components to determine whether the components constituted a business for which discrete financial information is available and which management regularly reviewed the operating results of that component at either the operating segment level or one level below the operating segment.
 
Based on the evaluation of the operating segments in 2008, the Company’s two operating segments were Symyx Software and Symyx HPR.  For purposes of goodwill evaluation, the Company allocated goodwill into three reporting units: Symyx Software and Symyx Research and Symyx Tools. Symyx Research and Symyx Tools comprised the Symyx HPR operating segment.
 
In 2009, due to the change in Symyx’s business and therefore combination of Symyx Research and Symyx Tools within the HPR operating segment, the Company allocated goodwill into two reporting units: Symyx Software and Symyx HPR, consistent with our segment disclosure described in Note 6 of the Notes to Consolidated Financial Statements.
 
Testing goodwill for impairment requires a two-step approach under the authoritative guidance on goodwill and other intangible assets. In determining the fair value of its reporting units in step one of its goodwill and other intangible assets impairment analysis, the Company uses a combination of the income approach, which is based on the present value of discounted cash flows and terminal value projected for the reporting unit, and the market approach, which estimates fair value based on an appropriate valuation multiple of revenue or earnings derived from comparable companies, adjusted by an estimated control premium. These calculations are dependent on several subjective factors including the timing of future cash flows, future growth rates, the discount rate, and a selection of peer market transactions. The discount rate that the Company uses in the income approach of valuation represents the weighted average cost of capital that the Company believes is reflective of the relevant risk associated with the projected cash flows.

If the estimated fair value of a reporting unit’s goodwill exceeds its net book value, the Company concludes that its goodwill is not impaired. Otherwise, the Company performs step two of the above test to compare the estimated implied fair value of goodwill to its carrying value. The excess carrying value of goodwill as compared to the implied is recorded as a goodwill impairment.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

In the fourth quarter of 2009, the Company conducted an impairment analysis of goodwill and concluded that there was no more impairment to goodwill. In the fourth quarter of 2008, the Company concluded that the carrying amounts of goodwill exceeded the implied fair value of goodwill in the Symyx Software and Symyx Research reporting units and recorded an impairment charge.

Long Lived Assets

In accordance with the authoritative guidance on accounting for the impairment or disposal of long-lived assets, the Company tests other long-lived assets, including property, equipment and leasehold improvements and other intangible assets subject to amortization, for recoverability whenever events or changes in circumstances indicate that the carrying value of those assets may not be recoverable.

For purposes of grouping long lived assets for impairment evaluation, the Company grouped the assets at the lowest level for which identifiable cash flows are largely independent of the cash flows of other assets and liabilities.

In 2008, the Company was able to identify cash flows for the Symyx Software, Symyx Research and Symyx Tools groups.  In 2009, due to the change in business and combination of the Symyx Research and Symyx Tools activities, the Company grouped the long lived assets into the lowest level of identifiable cash flows of Symyx Software and Symyx HPR.

The Company assesses the recoverability of an asset group by determining if the carrying value of the asset group exceeds the sum of the projected undiscounted cash flows expected to result from the use and eventual disposition of the assets over the remaining economic life of the primary asset in the asset group. If the recoverability test indicates that the carrying value of the asset group is not recoverable, the Company will estimate the fair value of the asset group using the same approaches indicated above for step two of the authoritative guidance on accounting for the impairment or disposal of long-lived assets and compare it to its carrying value. The excess of the carrying value over the fair value is allocated pro rata to derive the adjusted carrying value. The adjusted carrying value of each asset in the asset group is not reduced below its fair value.

In the fourth quarter of 2009, the Company conducted an impairment analysis of other long-lived assets and concluded no impairment should be recorded, except for the $327,000 related to the Integrity Bio additional purchase consideration as discussed in Note 7. In the fourth quarter of 2008, due to the significant decline of its market capitalization, the Company also performed an impairment test of long-lived assets. As a result of this analysis, the Company concluded that the carrying amounts of intangibles and other long-lived assets in Symyx Research and Symyx Tools reporting units exceeded their implied fair values and recorded an impairment charge.

Based on the impairment analysis conducted in the fourth quarter of 2008, the Company recorded the following impairment charges by reporting unit (in thousands):

   
Goodwill
   
Intangible Assets
   
Plant, Property and Equipment
   
Total
 
Symyx Software
  $ 71,085     $ -     $ -     $ 71,085  
Symyx HPR:
                            -  
Symyx Research
    5,404       1,760       7,676       14,840  
Symyx Tools
            814       3,591       4,405  
Total impairment charges
  $ 76,489     $ 2,574     $ 11,267     $ 90,330  


The following table illustrates the change in the Company’s goodwill in 2009 and 2008 by business segment (in thousands):


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

   
Symyx Software
   
Symyx HPR
   
Total
 
Balance as of January 1, 2008
  $ 113,699     $ 411     $ 114,110  
Goodwill acquired during the period
    -       5,440       5,440  
Goodwill impairment
    (71,085 )     (5,404     (71,085 )
Adjustments to goodwill
    (3,075 )     (7 )     (8,486 )
Balance as of December 31, 2008
  $ 39,539     $ 440     $ 39,979  
Goodwill acquired during the period
    -       -       -  
Goodwill impairment
    (327 )     -       (327 )
Adjustments to goodwill
    (21 )     9       (12 )
Balance as of December 31, 2009
  $ 39,191     $ 449     $ 39,640  

Intangible assets, with the exception of goodwill which is not subject to amortization, are amortized using the straight-line method over their estimated period of benefit, ranging from one to eight years. See Note 11 of the Notes to Consolidated Financial Statements for detail.

Property, plant and equipment are stated at cost. Depreciation of equipment is computed using the straight-line method over lives of three to five years for financial reporting purposes and by accelerated methods for income tax purposes. Depreciation of buildings is computed using the straight-line method over lives of 30 years for financial reporting purposes. Leasehold improvements are amortized over the shorter of the lease term or the estimated useful life of the assets for financial reporting purposes and over a maximum 40-year period for income tax reporting purposes. Property, plant and equipment consist of the following (in thousands):

   
December 31,
 
   
2009
   
2008
 
             
Machinery and equipment
  $ 31,033     $ 34,958  
Computers and software
    12,134       10,314  
Land and building
    3,551       3,551  
Leasehold improvements
    32,458       27,035  
Construction in progress
    2,356       1,913  
Furniture and fixtures
    2,812       2,801  
Property, plant and equipment, gross
    84,344       80,572  
Less accumulated depreciation and amortization
    (67,312 )     (62,125 )
Property, plant and equipment, net
  $ 17,032     $ 18,447  


At December 31, 2009, all property, plant and equipment were pledged as collateral under the Company’s bank credit facility as detailed in Note 5 of the Notes to Consolidated Financial Statements. Amortization of leasehold improvements is included in depreciation expense. Depreciation expense was $5,163,000, $11,078,000 and $10,818,000 in 2009, 2008 and 2007, respectively.

Revenue Recognition

The Company recognizes non-software and single deliverable arrangements in accordance with the authoritative guidance on revenue recognition, and other authoritative accounting literature. We recognize all software arrangements in accordance with the authoritative guidance on software revenue recognition and all multiple element arrangements in accordance with the authoritative guidance on multiple-deliverable revenue recognition. The Company generates revenue from services provided under research collaborations, the sale of products, the license of software, the provision of support and maintenance and other services, and the license of intellectual property. It is possible for the Company’s customers to work with it in multiple areas of its business and contracts may include multiple elements such as service revenue, product revenue, license revenue, and royalty revenue. In determining the basis for non-software product revenue recognition, the Company first determines the fair value of any extended warranty services and defers this revenue to be recognized ratably over the warranty service period. For those non-software product sales contracts that involve multiple element deliverables, the Company identifies all deliverables, determines the units of accounting and allocates revenue among the units of accounting in accordance with the authoritative guidance on multi-deliverable revenue recognition. In a multiple-element arrangement that includes software that is more than incidental to the products or services as a whole, the Company recognizes revenue from the software and software-related elements, as well as any non-software deliverable(s) for which a software deliverable is essential to its functionality, in accordance with the authoritative guidance on software revenue recognition.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Service Revenue

The Company recognizes service revenue from research service agreements, software consulting, and support and maintenance agreements based upon the performance requirements of the agreements. Payments received prior to performance are deferred and recognized as revenue when earned over future performance periods. Research agreements specify minimum levels of research effort required to be performed by the Company. Payments received under research agreements are not refundable if the research effort is not successful. Direct costs associated with research services are included in research and development expense. Software consulting agreements specify the number of days of consulting services to be provided by the Company. Support and maintenance agreements specify the term of the product maintenance and the nature of the services to be provided by the Company during the term.

Non-refundable up-front payments received in connection with research and development collaboration agreements, including technology access fees, are deferred and recognized on a straight-line basis over the relevant periods specified in the agreement, generally the research term. Research revenue is either recognized as research service time is delivered to the customer or as the results of research experiments are delivered to the customer over the term of the agreement. Revenue from milestone payments, which are substantially at risk until the milestones are completed, is recognized upon completion of these milestone events. Milestone payments to date have been immaterial.

Revenue allocable to support and maintenance is recognized on a straight-line basis over the period the support and maintenance is provided. The Company’s software maintenance may provide for technical support, bug fixes, and rights to unspecified upgrades on a when-and-if-available basis for periods defined within the services contract. Revenue related to this post-contract customer support is deferred and recognized ratably over the term of the contracted support.

For many customers, the Company has developed custom software applications and other protocals that are typically invoiced on a time and materials basis. These custom development projects are generally not sold in connection with a new software license deal, but rather to customers that have been using the Company’s software products for an extended period of time. Revenue from these arrangements is non-refundable and is usually recognized on a monthly basis as the services are delivered and invoiced.

Extended product maintenance contracts, which typically provide both extended warranty coverage and product maintenance services, are separately priced from the product, and are recognized as revenue ratably over the term of the coverage. The Company’s software licenses may provide for technical support, bug fixes, and rights to unspecified upgrades on a when-and-if-available basis for periods defined within the product maintenance contract. Revenue related to this post-contract customer support is deferred and recognized over the term of the contracted support.

Product Sales

Product sales revenue includes sales of tools and the license of associated software. The Company’s tools are typically delivered under multiple-element arrangements, which include hardware, software and intellectual property licenses, and maintenance. A determination is made for each system delivered as to whether software is incidental to the system as a whole. If software is not incidental to the system as a whole, revenue from these arrangements is recognized in accordance with the authoritative guidance on software revenue recognition. If software is incidental to the system, revenue from the sale of the system is earned and recognized when persuasive evidence of an arrangement exists, delivery of the product has occurred, no significant obligations with regard to implementation remain, the fee is fixed or determinable, and collectability is reasonably assured. This is generally upon shipment, transfer of title to and acceptance by the customer of the hardware and associated licenses to software and intellectual property, unless there are extended payment terms. The Company considers all arrangements with payment terms extending beyond twelve months not to be fixed or determinable. If the fee is not fixed or determinable, revenue is recognized as payments become due from the customer. In multiple element arrangements, the Company uses the residual method to allocate revenue to delivered elements once it has established fair value for all undelivered elements. Payments received in advance under these arrangements are recorded as deferred revenue until earned.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

An accrual is established for warranty expenses at the time the associated revenue is recognized. Shipping and insurance costs associated with the sale of tools are not material and are included in sales, general and administrative expenses.

Software License and Database Content Fees

Revenue is recognized when persuasive evidence of an arrangement exists, delivery has occurred, the fee is fixed or determinable, and collectability is probable. The Company enters into certain arrangements where it is obligated to deliver multiple products and/or services (multiple elements). In these transactions, the Company allocates the total revenue among the elements based on the sales price of each element when sold separately (Vendor-Specific Objective Evidence, or VSOE of fair value).
   
If the fair value of all elements has not been determined, the amount of revenue allocated to undelivered elements is based on the VSOE of fair value for those elements using the residual method. Under the residual method, the total fair value of the undelivered elements, as indicated by VSOE, is recorded as deferred revenue, and the difference between the total arrangement fee and the amount for the undelivered elements is recognized as revenue related to delivered elements. If evidence of the fair value of one or more undelivered elements does not exist, the total revenue is deferred and recognized when delivery of those elements occurs, when fair value for any remaining undelivered elements can be established or when the only remaining undelivered elements are post-contract customer support, which the Company will recognize ratably over the term of support.
   
For software and database content licensed on an annual right to use basis, revenue is recognized ratably over the term of the license. Revenue from multi-year licensing arrangements are deferred at the time of billing and recognized as revenue ratably over the maintenance and support coverage period. Certain multi-year software licensing arrangements include rights to receive future versions of software products on a when-and-if-available basis. For software licensed on a perpetual basis, where the Company has not established vendor specific objective evidence of the fair value of the software licenses and maintenance and support (primarily the support for the Electronic Lab Notebook software products and certain support for the products that we acquired from MDL), the perpetual license fee is recognized ratably over the contractual period of the bundled support and maintenance arrangements.

The Company considers all arrangements with payment terms longer than 12 months not to be fixed or determinable. If the fee is not fixed or determinable, revenue is recognized as payments become due from the customer, provided all the other revenue recognition criteria have been met.

Intellectual Property License Fees and Royalties

Amounts received from third parties for licenses to the Company's intellectual property are recognized when earned under the terms of the agreements. Revenue is recognized upon transfer of the license unless the Company has continuing obligations for which fair value cannot be established, in which case the revenue is recognized ratably over the period of the obligation. If there are extended payment terms, license fee revenue is recognized as these payments become due. The Company considers all arrangements with payment terms extending beyond 12 months not to be fixed or determinable. If there is a provision in the licensing agreement for a variable fee in addition to a non-refundable minimum amount, the amount of the non-refundable minimum guarantee is recognized upon transfer of the license unless the Company has continuing obligations for which fair value cannot be established and the amount of the variable fee in excess of the guaranteed minimum is recognized as revenue when it is fixed and determinable.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Royalty revenue is recorded based on reported sales by third-party licensees of products containing the Company’s software and intellectual property. If there are extended payment terms, royalty revenues are recognized as these payments become due. Non-refundable royalties, for which there are no further performance obligations, are recognized when due under the terms of the agreements.

Amounts received from third parties for options to license certain technology or enter collaborative arrangements upon specified terms are deferred until either the option is exercised or expires.

Concentration of Revenue

During the years ended December 31, 2009, 2008 or 2007, the following customers contributed more than 10% of the Company’s total revenue for the year (in thousands):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
ExxonMobil
  $ 13,747     $ 24,514     $ 36,489  
Dow
    25,522       28,681       35,301  
Total
  $ 39,269     $ 53,195     $ 71,790  
 
 
The revenue from the above customers has been included in the following reportable segments for the years ended December 31, 2009, 2008 and 2007 (in thousands):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
Symyx Software
  $ 7,617     $ 9,744     $ 9,343  
Symyx HPR
    31,652       43,451       62,447  
Total
  $ 39,269     $ 53,195     $ 71,790  
 
 
The revenue from the above customers has been included in the consolidated statements of operations as follows (in thousands):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
Service revenue
  $ 17,711     $ 24,323     $ 35,939  
Product sales
    7,487       14,055       16,472  
License fees, content revenue and royalties
    14,071       14,817       19,379  
Total
  $ 39,269     $ 53,195     $ 71,790  
 
 
Inventory

Raw materials inventory consists of purchased parts. Work-in-process inventory consists of purchased parts and fabricated sub-assemblies for Symyx tools in the process of being built. The Company does not have finished goods inventory that have been finished but are pending shipment to customers. Inventories are carried at the lower of cost or market, with cost determined on a specific identification basis. The Company’s inventory balances at December 31, 2009 and December 31, 2008 were as follows (in thousands):


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

   
December 31,
 
   
2009
   
2008
 
Raw Materials
  $ -     $ 20  
Work-in-process
    1,956       3,288  
Total
  $ 1,956     $ 3,308  


Accounts Receivable and Allowance for Doubtful Accounts

Trade accounts receivable are recorded at the invoiced amount and do not bear interest.

The Company assesses its allowance for doubtful accounts based on a combination of factors. In cases where the Company is aware of circumstances that may impair a specific customer’s ability to meet its financial obligations to us, the Company records a specific allowance against amounts due and thereby reduces the net recognized receivable to the amount it reasonably believes will be collected. For all other customers, the Company records allowances for doubtful accounts based on the length of time the receivables are past due, the current business environment and its historical experience.

For the years ended December 31, 2009 and 2008, the Company’s allowance for doubtful accounts changed as follows (in thousands):

   
2009
   
2008
 
Balance as of January 1
  $ 356     $ 53  
New allowance recorded
    -       336  
Accounts written-off
    (200 )     (33 )
Balance as of December 31
  $ 156     $ 356  


Accrued Warranty

The Company provides a warranty on each Symyx tool shipped. The specific terms and conditions of these warranties vary depending upon the products sold and country in which the Company delivers the products. These warranties typically include coverage for parts and labor and software bug fixes, for a specified period (typically one year). The Company estimates the costs that may be incurred under its basic limited warranty and records a liability in the amount of such costs at the time product revenue is recognized. Factors that affect the Company’s warranty liability include the number of installed units, historical and anticipated rates of warranty claims, and cost per claim. The Company periodically assesses the adequacy of its recorded warranty liabilities and adjusts the amounts as necessary.

Changes in the Company’s accrued warranty during the years ended December 31, 2009 and 2008 are as follows (in thousands):


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

   
2009
   
2008
 
Balance as of January 1
  $ 1,409     $ 1,728  
New warranties issued during the period
    834       983  
Costs incurred during the period on specific systems
    (798 )     (603 )
Changes in liability for pre-existing warranties during the period, including expirations
    (596 )     (699 )
Balance as of December 31
  $ 849     $ 1,409  


Research and Development

The Company’s policy is to expense as incurred all costs of research and development, including direct and allocated expenses, related both to costs incurred on its own behalf and on behalf of its customers. The types of costs classified as research and development expense include salaries of technical staff, consultant costs, chemical and scientific supplies costs, facilities rental, and utilities costs related to laboratories and offices occupied by technical staff, depreciation on equipment and facilities used by technical staff and outside services, such as machining and third-party research and development costs.

The Company has entered into a number of multi-year research and development collaborations to perform research for partners in exclusive fields over multiple years. The major collaborative arrangements have similar contractual terms and are non-cancelable other than for material breach or certain other conditions. Under the collaborative arrangements, the Company is responsible for performing research as defined in the agreements, including synthesis, screening, and informatics. The partner, in turn, is entitled to develop and commercialize materials discovered in or under collaboration within the defined field. The Company typically receives research and development funding at specified amounts per full time equivalent employee working on the project and is entitled to receive royalties on the sale of any products commercialized under the agreement or payments on the achievement of specified research milestones. The agreements also contain procedures by which the Company and the partner will determine royalty rates for the sale or license of products under the agreements.

The table below indicates the significant collaborative partners for whom the Company conducted research and development in 2009, 2008 or 2007, together with the primary focus of the collaborations. In addition to these partners the Company has a number of other undisclosed partners, none of which individually constituted more than 5% of total revenue in these years:

Partner
 
Current Research Contract Ends
 
Primary focus of current collaborative efforts
Dow
 
12/31/2009
 
Basic and Specialty chemicals and materials research
ExxonMobil
 
5/31/2008
 
Catalyst and process development for basic chemicals and refining applications
 
 
The Company does not track or allocate actual costs by collaboration or project, as the requirement from its collaborative partners is to staff the various projects on a full-time-equivalent (“FTE”) employee basis. Accordingly, the Company tracks the hours incurred by assigned research scientists and engineers to each project. Based on hours spent on each project, the Company estimates the research and development efforts undertaken for various projects were as follows:

   
2009
   
2008
   
2007
 
Customer-sponsored projects
    28 %     37 %     55 %
Internally-funded projects
    72 %     63 %     45 %
Total
    100 %     100 %     100 %


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Income Taxes

Income taxes have been provided using the liability method. Deferred tax assets and liabilities are determined based on the difference between the financial statement and tax bases of assets and liabilities as measured by the enacted tax rates which will be in effect when these differences reverse. The Company provides a valuation allowance against net deferred tax assets if, based upon the available evidence, it is not more likely than not that the deferred tax assets will be realized.

Software Development Costs

The authoritative guidance on accounting for the costs of computer software to be sold, leased or otherwise marketed, requires the capitalization of certain software development costs subsequent to the establishment of technological feasibility. The Company determined that the technological feasibility of its software products is established only upon the completion of a product design, a working model and the confirmation of the completeness of the working model against the product design. Costs incurred by the Company between the completion of the working model and the point at which the product is ready for the general release have been insignificant. Accordingly, the Company has charged all such costs to research and development expense in the period incurred.

Employee Savings Plan

The Company has a savings plan in the United States that qualifies under Section 401(k) of the Internal Revenue Code. Participating U.S. employees may contribute up to 60% of their pretax salary, but not more than statutory limits. For each dollar a participant contributes under this plan, the Company makes employer contribution to the plan of 50 cents, with a maximum matching contribution of 2% of a participant’s earnings. Matching contributions for the plan were $924,000, $1,010,000 and $795,000 in 2009, 2008 and 2007, respectively. Symyx common stock is not an investment option under the plan.

The Company participates in defined contribution plans in non-U.S. locations. Contributions to defined contribution plans are expensed when employees have rendered services in exchange for such contributions, generally in the year of contribution. Employer contributions for the plans were approximately $372,000, $300,000 and $205,000 in 2009, 2008 and 2007, respectively.

Foreign Currency Translation

The Company accounts for foreign currency translation in accordance with the authoritative guidance on foreign currency translation. The Company translates the assets and liabilities of its international non-U.S. dollar functional currency subsidiaries into U.S. dollars at the rates of exchange in effect on the balance sheet date. Revenue and expenses are translated using rates that approximate those in effect during the period. Translation adjustments are included in stockholders’ equity in the Consolidated Balance Sheet caption “Accumulated other comprehensive income.” Currency transaction losses derived from monetary assets and liabilities such as accounts receivable stated in a currency other than the functional currency and recognized in results of operations were $410,000, $1,963,000 and $162,000 for the years ended December 31, 2009, 2008 and 2007, respectively. The effect of foreign currency rate changes on cash and cash equivalents was an increase of $86,000 in 2009 and decreases of $172,000 and $498,000 for the years ended December 31, 2008 and 2007, respectively.

Deferred Costs

Occasionally, the Company enters into certain software consulting service and tool product arrangements under which all revenue is deferred until elements of the arrangements are delivered in the future. In these cases, the direct variable expenses, not exceeding the revenue deferred, are deferred and included in other current assets on the balance sheet until the revenue is recognized. Direct variable expenses include direct labor costs and direct services contracts with third parties working on the software service arrangements. As of December 31, 2009 and 2008, the Company deferred approximately $880,000 and $2,162,000, respectively, of direct variable expenses related to software consulting service and tools product arrangements in which the revenue is deferred until future periods. The deferred amounts meet the definition of assets. They are related to future elements of enforceable contracts and will result in positive margins when the Company recognizes them.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

To account for deferred costs for contracts for which revenue recognition falls within the scope of FASB ASC No. 605-10-S25, Revenue Recognition (previously referenced as Staff Accounting Bulletin 104), the Company has applied FASB ASC No. 310, Accounting for Nonrefundable Fees and Costs Associated with Originating or Acquiring Loans and Initial Direct Costs of Leases (as amended), previously referred to as SFAS No. 91.

For contracts for which revenue recognition falls within FASB ASC No. 605-35, Accounting for Performance of Construction-Type and Certain Production-Type Contracts, previously referred to as AICPA Accounting Statements of Positions No. 81-1, the Company has applied the guidance contained therein to account for the related deferred costs.

Fair Value Measurements
 
In September 2006, the FASB issued ASC No. 820, Fair Value Measurements (ASC 820), and previously referred to as Statement No. 157). The accounting pronouncement establishes a three-level hierarchy which prioritizes the inputs used in measuring fair value. In general, fair value determined by Level 1 inputs utilize quoted prices in active markets for identical assets or liabilities. Fair values determined by Level 2 inputs utilize data points that are observable such as quoted prices, interest rates and yield curves. Fair values determined by Level 3 inputs are unobservable data points for the asset or liability, and includes situations in which there is little, if any, market activity for the asset or liability. Included in the cash and cash equivalent balances were the fair value of the Company’s cash equivalents of $67,401,000 and $51,999,000 at December 31, 2009 and 2008, respectively, based on Level 1 inputs.  Effective January 1, 2009, the Company adopted the provisions under ASC 820 for valuation of nonfinancial assets and nonfinancial liabilities. The adoption of such provisions did not impact the Company’s financial position, results of operations or cash flows.

Comprehensive Income

The components of other comprehensive income consist of unrealized gains and losses on marketable securities and foreign currency translation adjustments, both net of tax. Comprehensive income has been disclosed in the statement of stockholders' equity for all periods presented.

The components of accumulated other comprehensive income at December 31, 2009, 2008 and 2007 are as follows (in thousands):
 
   
Foreign Currency Translation Adjustments
   
Unrealized Gain (Loss) On Available-For-Sale Securities
   
Total
 
                   
                   
Balance at January 1, 2007
  $ (28 )   $ 24     $ (4 )
Foreign currency translation adjustment
    628       -       628  
Unrealized gain on available-for-sale securities
    -       (23 )     (23 )
Balance at December 31, 2007
    600       1       601  
Foreign currency translation adjustment
    2,006       -       2,006  
Unrealized gain on available-for-sale securities
    -       (1 )     (1 )
Balance at December 31, 2008
    2,606       -       2,606  
Foreign currency translation adjustment
    (15 )     -       (15 )
Balance at December 31, 2009
  $ 2,591     $ -     $ 2,591  
 

Effect of New Accounting Pronouncements
   
FASB Accounting Standard Update (ASU) No. 2010-06, Improving Disclosures about Fair Value Measurements, requires disclosures about inputs and valuation techniques used to measure fair value as well as disclosures about significant transfers, beginning in the first quarter of 2010. Additionally, these amended standards require presentation of disaggregated activity within the reconciliation for fair value measurements using significant unobservable inputs (Level 3), beginning in the first quarter of 2011. The Company does not expect these new standards to significantly impact its consolidated financial statements.
   
FASB ASC No. 810, Amendments to FASB Interpretation No. 46(R) (ASC 810, and formerly referred to as SFAS No. 167), makes significant changes to the model for determining who should consolidate a variable interest entity, and also addresses how often this assessment should be performed. ASC 810 will be effective for the Company beginning in the first quarter of 2010. The Comany is assessing the impact of the adoption of this standard on its financial statements particularly in connection with the divestiture of the HPR business.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

FASB ASU No. 2009-13, Revenue Recognition: Multiple-Deliverable Revenue Arrangements—a consensus of the FASB Emerging Issues Task Force, which eliminates the use of the residual method for allocating consideration, as well as the criteria that require objective and reliable evidence of fair value of undelivered elements in order to separate the elements in a multiple-element arrangement. By removing the criteria requiring the use of objective and reliable evidence of fair value in separately accounting for deliverables, the recognition of revenue will more closely align with certain revenue arrangements. The standard also will replace the term "fair value" in the revenue allocation guidance with "selling price" to clarify that the allocation of revenue is based on entity-specific assumptions rather than assumptions of a marketplace participant. ASU No. 2009-13 is effective for revenue arrangements entered or materially modified in fiscal years beginning on or after June 15, 2010. The Company elected early adoption as of January 1, 2010 and is currently assessing the potential impact of this standard.

FASB ASU No. 2009-14, Software: Certain Revenue Arrangements that Include Software Elements—a consensus of the FASB Emerging Issues Task Force, which will significantly improve the reporting of certain transactions to more closely reflect the underlying economics of the transactions. By excluding from its scope certain software-enabled devices, multiple-element arrangements that include such software-enabled devices will now be evaluated for separation and allocation using the guidance in ASU No. 2009-13 (described above). ASU No. 2009-14 is effective for revenue arrangements entered or materially modified in fiscal years beginning on or after June 15, 2010. Early adoption as of January 1, 2010 is permitted but not elected by the Company. The Company is currently assessing the potential impact of this standard, but does not expect the adoption of the standard will have a material impact on the financial condition or results of operations of the Company.
 
2.  Net Income (Loss) per Share

Basic net income (loss) per share has been computed using the weighted-average number of shares of common stock outstanding during the period. Diluted net income (loss) per share has been calculated based on the shares used in the calculation of basic net income (loss) per share and the dilutive effect of stock options, restricted stock and restricted stock units.

The following table presents the calculation of basic and diluted net income (loss) per share (in thousands, except per share data):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
                   
Net income (loss)
  $ (1,138 )   $ (106,616 )   $ 18,784  
                         
Weighted-average shares of common stock outstanding
    34,321       33,765       33,301  
Less: weighted-average restricted stock
    -       (18 )     (102 )
Weighted-average shares used in computing basic net income (loss) per share
    34,321       33,747       33,199  
Dilutive effect of employee stock options and restricted stock units, using the treasury stock method
    -       -       358  
Weighted-average shares used in computing diluted net income (loss) per share
    34,321       33,747       33,557  
                         
Basic net income (loss) per share
  $ (0.03 )   $ (3.16 )   $ 0.57  
Diluted net income (loss) per share
  $ (0.03 )   $ (3.16 )   $ 0.56  


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

The following shares were excluded from the calculation of diluted net income (loss) per share for 2009, 2008 and 2007, respectively, because all were anti-dilutive for the respective periods (in thousands):

   
2009
   
2008
   
2007
 
Options
    4,463       5,276       5,072  
Restricted stock units
    469       740       -  
Restricted stock
    -       -       91  
Total anti-dilutive shares
    4,932       6,016       5,163  


3. Commitments

Leases

The Company has entered into various operating lease agreements for facilities with lease terms ranging from one to 25 years. Rent expense, which is being recognized on a straight-line basis over the lease terms, was approximately $4,905,000, $5,610,000 and $3,902,000 for the years ended December 31, 2009, 2008 and 2007, respectively. Future commitments and obligations under the operating leases for the Company’s facilities, to be satisfied as they become due, are as follows (in thousands):

Years ending December 31,
 
Amount
 
2010
  $ 4,793  
2011
    4,620  
2012
    4,234  
2013
    4,098  
2014
    4,046  
Thereafter
    3,816  
Total
  $ 25,607  
 
 
Estimated future rents receivable from sublease agreements through 2012, not included above, amount to approximately $457,000. If the Divestiture closes, estimated additional rent receivable from the sublease to HPR Global would be approximately $3.5 million through October 31, 2015.
 
Other Commitments

As of December 31, 2009, the Company had firm purchase commitments for inventory, fixed assets and services of approximately $4,992,000, of which it expects to cancel or transfer approximately $1.8 million due to the Divestiture. The Company also had committed to pay royalties to third parties on future database content revenue of approximately $1,104,000 upon cash receipts from customers.

As of December 31, 2009, the Company recorded $2,322,000 liabilities associated with uncertainties in income taxes under the authoritative guidance on accounting for uncertainty in income taxes. The Company could not make reasonably reliable estimates of the periods of cash settlement with the respective tax authorities and as such has recorded the liabilities as noncurrent on its Consolidated Balance Sheet.

As of December 31, 2009, the Company had no amounts due under loan agreements and had an unused line of credit with Bank of America as detailed in Note 5 of the Notes to Consolidated Financial Statements.

Customer Indemnification

From time to time, the Company agrees to indemnify its customers against certain third-party liabilities, including liability if its products infringe a third party’s intellectual property rights. The Company accounts for such indemnification provisions in accordance with the authoritative guidance for guarantor’s accounting and disclosure requirements for guarantees, including indirect guarantees of indebtedness of others. Other than for limited exceptions (e.g., intellectual property indemnity or bodily harm), the Company’s indemnification obligation in these arrangements is typically limited to no more than the amount paid by the customer. As of December 31, 2009, the Company was not subject to any material pending intellectual property-related litigation. The Company has not received any requests for and has not been required to make any payments under these indemnification provisions during any periods covered in these consolidated financial statements.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

4.  Stockholders’ Equity

Stock Purchase Plan

The Company has an Employee Stock Purchase Plan (ESPP) that permits eligible employees to purchase common stock at a discount, but only through payroll deductions, during concurrent 12-month offering periods. Each offering period will be divided into two consecutive six-month purchase periods. The price at which stock is purchased under the ESPP is equal to 85% of the fair market value of the common stock on the first or last day of the offering period, whichever is lower. On May 4, 2009, Symyx’s Board of Directors amended and restated the Plan to eliminate the evergreen provision, effective after the January 1, 2009 increase in such reserved share pool, and to provide that the ESPP plan shall have an indefinite term. This amendment and restatement of the ESPP plan was not subject to shareholder approval. The Company registered an additional 1,005,793 shares authorized under the evergreen provision of its ESPP program for years 2007 through 2009 in June 2009. As of December 31, 2009, the number of shares of common stock available for future issue under the Purchase Plan was 1,879,110.

Stock Option Plans

The Company's 1996 Stock Option Plan was adopted in March 1996 and provided for the issuance of options for up to 1,153,444 shares of common stock to employees, directors and consultants.

During 1997, the Company's Board of Directors approved the adoption of the 1997 Stock Option Plan with terms and conditions the same as those of the 1996 Stock Option Plan (collectively, the Qualified Plans). The 1997 Stock Option Plan provided for the issuance of options for up to 14,090,572 shares of common stock to employees and consultants. In February 2007, the Qualified Plans expired and all unissued shares under the Qualified Plans were forfeited.

In October 2001, the Company's Board of Directors approved the adoption of the 2001 Nonstatutory Stock Option Plan (the NSO Plan). The NSO Plan provides for the issuance of options for up to 1,000,000 shares of common stock to non-executive employees and consultants. As of December 31, 2009, all authorized shares of options under the NSO Plan had been granted.

At the 2007 Annual Stockholders Meeting held on June 12, 2007, the Company’s stockholders approved the adoption of the 2007 Symyx Technologies, Inc. Stock Incentive Plan (the 2007 Stock Plan). The 2007 Stock Plan provides for the grant of stock options, restricted stock, restricted stock units and stock appreciation rights (collectively, awards). Stock options granted under the 2007 Plan may be either incentive stock options under the provisions of Section 422 of the Internal Revenue Code of 1986, as amended (the Code), or nonqualified stock options. The Compensation Committee of the Company’s Board of Directors administers the 2007 Stock Plan. The aggregate number of shares of common stock that may be issued pursuant to awards granted under the 2007 Stock Plan is 750,000 shares, plus any shares that would otherwise return to each of the Company’s Qualified Plans and the Company’s NSO as a result of forfeiture, termination or expiration of awards previously granted under each of the 1997 Plan and the 2001 Nonstatutory Plan.  The maximum number of shares with respect to which options and stock appreciation rights may be granted to a participant during a calendar year is 750,000 shares. For awards of restricted stock and restricted stock units that are intended to be performance-based compensation under Section 162(m) of the Code, the maximum number of shares subject to such awards that may be granted to a participant during a calendar year is 750,000 shares.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

At the Company’s annual stockholder meeting on June 16, 2008, the Company’s stockholders approved a proposal to amend the Company’s 2007 Stock Plan to increase the total authorized shares available for grant under such plan by 4,700,000 shares and reduce the number of shares available for issuance under the 2007 Stock Plan (i) by one share for each share of common stock subject to a stock option or stock appreciation right; and (ii) by one and sixty-five hundredths (1.65) shares for each share of common stock subject to any other type of award issued under the 2007 Stock Plan. As of December 31, 2009, 5,109,887 shares were available for issuance under the 2007 Stock Plan.

The Company’s stockholders also approved a voluntary stock option exchange program to allow eligible employees holding stock options with exercise prices equal to or greater than $12.00 per share the opportunity to exchange eligible stock options for new stock options with a lower exercise price but covering fewer shares.  The Company’s directors, executive officers, consultants and employees with a tax residence outside of the United States were not allowed to participate in this program. The Company completed the stock option exchange in the third quarter of 2008. Eligible participants tendered options to purchase 2,042,812 shares of common stock in exchange for replacement options to purchase 394,509 shares of common stock under the Company’s 2007 Stock Plan, resulting in $111,000 of incremental stock-based compensation to be amortized on a straight-line basis over the vesting period of the replacement options (a maximum of 2 years). The shares subject to options canceled in this program were not returned to the 2007 Stock Plan for future issuance.

In connection with the acquisition of IntelliChem, the Company assumed all the unvested outstanding stock options issued pursuant to IntelliChem’s 2003 Stock Option Plan (IntelliChem Plan) and converted them into options to purchase 44,126 shares of the Company’s common stock. In connection with the acquisition of Synthematix, the Company assumed all the unvested outstanding stock options issued pursuant to Synthematix’s 2000 Equity Compensation Plan (Synthematix Plan), as amended, and converted them into options to purchase 23,876 shares of the Company’s common stock. These options generally retained all of the rights, terms, and conditions of the plan under which they were originally granted. As of December 31, 2009, options to purchase 13,717 and 2,971 shares of common stock were available for future grant under the IntelliChem Plan and Synthematix Plan, respectively.

Stock options granted under the Qualified Plans and 2007 Stock Plan may be either incentive stock options or nonstatutory stock options, whereas stock options granted under the NSO Plan are nonstatutory stock options. Options are generally granted with exercise prices equal to the fair value of the common stock on the grant date, as determined by the Board of Directors. The options issued under the Qualified Plans and the NSO plan expire no more than 10 years after the date of grant or earlier if employment or relationship as a director or consultant is terminated. The options issued under the 2007 Stock plan expire no more than 7 years after the date of grant or earlier if employment or relationship as a director or consultant is terminated. The Board of Directors shall determine the times during the term when the options may be exercised and the number of shares for which an option may be granted. Options may be granted with different vesting terms from time to time but will provide for annual vesting of at least 20% of the total number of shares subject to the option.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

A summary of activity under all the above stock option plans is as follows:
 
   
Outstanding Stock Options
 
                     
Weighted-
 
     
Number of
     
Exercise
     
Average
 
     
Shares
     
Price
     
Exercise Price
 
Balance at January 1, 2007
    6,762,592     $ 0.19 - $58.25     $ 27.35  
Options granted
    1,423,500     $ 4.29 - $ 8.58     $ 6.68  
Options exercised
    (96,122 )   $ 0.39 - $18.95     $ 6.55  
Options cancelled
    (1,222,527 )   $ 0.19 - $57.00     $ 28.31  
Balance at December 31, 2007
    6,867,443     $ 0.39 - $58.25     $ 23.18  
Options granted
    2,038,009     $ 3.03 - $26.19     $ 6.20  
Options exercised
    (30,451 )   $ 0.39 - $10.47     $ 2.72  
Options cancelled
    (3,599,230 )   $ 0.96 - $58.25     $ 27.24  
Balance at December 31, 2008
    5,275,771     $ 0.51 - $57.00     $ 13.97  
Options granted
    130,000     $ 4.56 - $5.83     $ 4.85  
Options exercised
    (113,185 )   $ 0.96 - $6.43     $ 3.82  
Options cancelled
    (829,348 )   $ 0.96 - $31.53     $ 11.03  
Balance at December 31, 2009
    4,463,238     $ 0.51 - $57.00     $ 14.51  


At December 31, 2009, 2008 and 2007, vested and outstanding options for the purchase of 2,563,991, 2,354,850, and 5,411,627 shares of common stock were exercisable at weighted-average exercise prices of $20.96, $23.76 and $27.53, respectively.

An analysis of options outstanding at December 31, 2009 is as follows:

                 
Options Exercisable
 
Exercise Price
   
Options Outstanding at December 31, 2009
   
Weighted-Average Remaining Contractual Life (in years)
   
Weighted-Average Exercise Price
   
Oustanding at December 31, 2009
   
Weighted-Average Remaining Contractual Life (in years)
   
Weighted-Average Exercise Price
 
$0.51 - $2.63       14,515       5.0     $ 2.30       14,515       5.0     $ 2.30  
$3.03 - $4.56       1,582,832       5.1     $ 3.86       400,681       5.9     $ 3.68  
$5.83 - $9.49       680,501       3.8     $ 8.10       180,001       3.7     $ 8.12  
$9.51 - $14.75       890,751       3.8     $ 12.35       674,155       3.4     $ 12.85  
$15.30 - $23.22       247,334       3.0     $ 17.43       247,334       3.0     $ 17.43  
$23.78 - $57.00       1,047,305       2.3     $ 36.09       1,047,305       2.3     $ 36.09  
        4,463,238       3.9     $ 14.51       2,563,991       3.3     $ 20.96  

The aggregate intrinsic values for the above outstanding and exercisable stock options were $2,650,000 and $775,000, respectively. The aggregate intrinsic value is calculated as the difference between the exercise price of the underlying awards and the close price of the Company’s common stock for in-the-money options at December 31, 2009. During the years ended December 31, 2009, 2008 and 2007, the aggregate intrinsic value of options exercised under the Company’s stock option plans was $213,000, $123,000 and $859,000, respectively. The aggregated fair value of stock options vested during 2009, 2008 and 2007 was $1,912,000, $99,000 and $1,330,000, respectively. As of December 31, 2009, $3,379,000 of total unrecognized compensation cost related to unvested stock options granted and outstanding is expected to be amortized over a weighted-average period of one year.

The Company granted stock options to purchase 130,000, 2,038,009 and 1,423,500 shares of common stock in 2009, 2008 and 2007, respectively. Included in option granted in 2008 were options to purchase 394,509 shares of common stock from the Company’s option exchange program. Included in options granted in 2007 were options to purchase 620,000 shares of common stock granted to non-executive employees at an exercise price equal to 50% of the grant date fair market value. The weighted-average grant date fair value of options granted (excluding the shares from stock option exchange program where only incremental charges were recorded) during the years ended December 31, 2009, 2008 and 2007 were $2.64, $2.15 and $4.08, respectively. The Company valued options granted in 2009, 2008 and 2007 using the Black-Scholes method with the following weighted-average valuation assumptions:


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

   
2009
   
2008
   
2007
 
Expected dividend
    0 %     0 %     0 %
Risk-free interest rate
    2.2 %     2.0 %     4.3 %
Expected volatility
    69 %     57 %     44 %
Expected life (in years)
    4.3       4.3       3.5  
   
The computation of expected volatility is based on historical volatility. Expected life is calculated using simplified method, due to significant differences in the vesting terms and contractual life of current option grants compared to the Company’s historical grants. The interest rate for periods within the contractual life of the award is based on the U.S. Treasury yield curve in effect at the time of grant.
   
The Company also granted restricted stock units to its employees and members of the Board of Directors under its stock option plans. The fair value of the Company’s restricted stock units was calculated based upon the fair market value of the Company’s stock at the date of grant. As of December 31, 2009, $1,544,000 of total unrecognized compensation cost related to unvested restricted stock units granted is expected to be amortized over a weighted-average period of one year. The Company plans to issue new common stock to settle the restricted stock units.  During the years ended December 31, 2009, 2008 and 2007, the Company paid $535,000, $499,000 and $1,956,000, respectively, in cash for employee withholding taxes in lieu of issuing common stock upon vesting of restricted stock units.

The following table illustrates the changes in status of the Company’s restricted stock units and restricted stock during the years ended December 31, 2009, 2008 and 2007:
 
   
Restricted Stock Units
   
Restricted Stock
 
   
Shares
   
Weighted-Average Grant-Date Fair Value
   
Shares
   
Weighted-Average Grant-Date Fair Value
 
Unvested at January 1, 2007
    328,050     $ 29.05       -    
na
 
Granted
    595,011     $ 17.26       176,400     $ 18.06  
Vested
    (325,406 )   $ 29.05       -    
na
 
Cancelled
    (152,169 )   $ 17.79       (85,300 )   $ 17.96  
Unvested at December 31, 2007
    445,486     $ 17.16       91,100     $ 18.15  
Granted
    635,953     $ 3.93       -    
na
 
Vested
    (226,590 )   $ 16.76       -    
na
 
Cancelled
    (114,829 )   $ 17.35       (91,100 )   $ 18.15  
Unvested at December 31, 2008
    740,020     $ 5.88       -    
na
 
Granted
    68,646     $ 5.73       -    
na
 
Vested
    (305,335 )   $ 7.41       -    
na
 
Cancelled
    (34,374 )   $ 4.81       -    
na
 
Unvested at December 31, 2009
    468,957     $ 4.94       -    
na
 

During the years ended December 31, 2009, 2008 and 2007, the Company valued awards under the ESPP using the Black-Scholes method with the following weighted-average valuation assumptions:


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

   
2009
   
2008
   
2007
 
Expected dividend
    0 %     0 %     0 %
Risk-free interest rate
    0.8 %     2.4 %     4.7 %
Expected volatility
    95 %     69 %     55 %
Expected life (in years)
    0.8       0.8       0.8  

As of December 31, 2009, $303,000 of total unrecognized compensation cost related to the ESPP is expected to be amortized over a weighted-average period of 4 months.

As of December 31, 2009, the Company has reserved the following shares of common stock for issuance:

Stock options outstanding
    4,463,238  
Restricted Stock Units
    468,957  
Stock options available for future grant
    5,126,575  
Employees stock purchase plan
    1,879,110  
      11,937,880  
 
 
The Company recognized stock-based compensation expenses of in the Company’s results of operations for the year ended December 31, 2009, 2008 and 2007 was as follows (in thousands):

   
2009
   
2008
   
2007
 
Costs of revenue
  $ 361     $ 227     $ 294  
Research and development
    1,183       1,396       2,627  
Sales, general and administrative
    2,856       2,745       2,796  
Total
  $ 4,400     $ 4,368     $ 5,717  


The income tax benefit recognized in the consolidated statements of operations related to stock-based compensation expense was $1,226,000, $1,410,000 and $1,873,000 in 2009, 2008 and 2007, respectively.

5.  Bank Credit Facility

On September 28, 2007, the Company entered into a Credit Agreement (the Credit Agreement) with Bank of America, N.A., as Administrative Agent and L/C Issuer (the Agent), and each lender from time to time a party thereto. Under the Credit Agreement, the Agent agreed to provide a $25 million aggregate commitment for a two-year revolving credit facility and issuances of letters of credit for the Company’s account (the Facility), secured by substantially all of the Company’s assets excluding intellectual property.

Loans under the Credit Agreement bear interest at either (i) for Eurodollar rate loans, the rate per annum equal to the British Bankers Association LIBOR plus a margin ranging from 0.25 percent to 0.50 percent or (ii) a formula based on the Agent’s prime rate and the federal funds effective rate.  Subject to certain conditions stated in the Credit Agreement, the Company may borrow, pre-pay and re-borrow amounts under the Facility at any time during the term of the Credit Agreement.   The Company may also, upon the agreement of either the Agent or additional banks not currently a party to the Credit Agreement, increase the commitments under the Facility up to an additional $50 million. The Credit Agreement contains customary representations, warranties, affirmative and negative covenants, including financial covenants and events of default.  The negative covenants set forth in the Credit Agreement include restrictions on additional indebtedness and liens, fundamental changes and entering into burdensome agreements. The financial covenants require the Company to meet quarterly financial tests with respect to consolidated net worth and consolidated interest coverage ratio, and financial tests with respect to a consolidated leverage ratio. As amended and extended, the Credit Agreement will terminate and all amounts owing thereunder will be due and payable on March 1, 2010, unless the commitments are earlier terminated, either at the Company’s request or, if an event of default occurs, by the lenders.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

As of December 31, 2009, the Company had no borrowings under the Facility other than a $780,000 standby letter of credit outstanding and was in compliance with all financial covenants related to the Facility.

6. Segment Disclosure

The authoritative guidance on disclosures about segments of an enterprise and related information, requires disclosures of certain information regarding operating segments, products and services, geographic areas of operation and major customers. The method for determining what information to report under the authoritative guidance on disclosures about segments of an enterprise and related information is based upon the "management approach," or the way that management organizes the operating segments within a company for which separate financial information is available and evaluated regularly by the Chief Operating Decision Maker (CODM) when deciding how to allocate resources and in assessing performance. The Company’s CODM is its Chief Executive Officer, who allocates resources to and assesses the performance of each business unit using information about the business unit’s revenue and operating income (loss). The Company’s CODM generally does not review the Company’s assets by business segment.
 
Revenue is defined as revenue from external customers and is disaggregated into:

·
Symyx Software – (i) license of electronic laboratory notebook, lab execution and experiment analysis, logistics and decision support software, and subscriptions to scientific content, and (ii) provision of associated support, maintenance and consulting services.
·
Symyx HPR – (i) research services, (ii) license fees and royalties associated with the Company’s patents, trade secrets and other intellectual property, including materials discovered in the Company’s research collaborations, (iii) sale of laboratory automation systems, and (iv) system support services.

The disaggregated financial information reviewed by the CODM in 2009, 2008 and 2007 is listed in the table below. The Company has research and development, manufacturing, sales and marketing, and general and administrative groups. Expenses for these groups are generally allocated to the business units. Certain corporate-level operating expenses and charges were not allocated to each business unit and were included in the “other” category. These expenses and charges include, but not limited to:

·
Acquisition-related costs, including in-progress research and development, amortization and any impairment of acquisition-related intangibles and goodwill;
·
Amounts included within restructuring and asset impairment charges; and
·
Results of operations of venture businesses supporting the Company’s initiatives.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

   
Year Ended December 31,
 
(in thousands)
 
2009
   
2008
   
2007
 
Revenue:
                 
Symyx Software
                 
Service
  $ 43,372     $ 45,016     $ 16,622  
License fees, content and royalties
    45,235       49,184       15,271  
Total Symyx Software revenue
  $ 88,607     $ 94,200     $ 31,893  
Symyx HPR
                       
Service
  $ 27,170     $ 29,876     $ 42,412  
Product
    23,888       25,033       34,898  
License fees, content and royalties
    10,781       9,936       15,869  
Total Symyx HPR revenue
  $ 61,839     $ 64,845     $ 93,179  
Total revenue
  $ 150,446     $ 159,045     $ 125,072  
Operating income (loss):
                       
Symyx Software
  $ 8,512     *     *  
Symyx HPR
    2,047     *     *  
Other
    (14,606 )   *     *  
Total operating loss
  $ (4,047 )   $ (116,863 )   $ (16,724 )

*  The Company did not implement a reporting system prior to 2009 to segregate operating expenses by business segment. It is impracticable to restate prior periods to be consistent with the current period presentation.

Geographic Area Data

The table below shows revenue by physical location of the Company’s customers (in thousands).

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
United States
  $ 94,168     $ 102,042     $ 109,741  
Asia
    15,057       14,300       3,712  
Europe
    40,204       40,885       11,065  
Rest of the World
    1,017       1,818       554  
Total
  $ 150,446     $ 159,045     $ 125,072  


The tables below show revenue and long-lived assets by location (in thousands):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
Revenue generated by U.S. operations
  $ 137,705     $ 132,629     $ 114,242  
Revenue generated by foreign operations
    12,741       26,416       10,830  
Total revenue from unaffiliated customers
  $ 150,446     $ 159,045     $ 125,072  
                         
Long-lived assets in U.S.
  $ 101,238     $ 114,373     $ 195,246  
Long-lived assets in foreign countries
    13,156       14,076       33,207  
Total long-lived assets
  $ 114,394     $ 128,449     $ 228,453  


7. Integrity Biosolution, LLC

On August 13, 2008, the Company acquired 100% of the ownership of Integrity Biosolution, LLC (IntegrityBio), a privately held research service company based in Camarillo, California. By acquiring IntegrityBio, the Company expanded its research service offerings in the life sciences industry into biologic formulations, complementing its existing chemical formulations services. IntegrityBio has since been merged with and into Symyx Software, Inc. effective December 31, 2008. Its results of operations have been included in the Company’s consolidated financial statements since the acquisition date.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

The purchase price for IntegrityBio was $10,248,000, including $9,446,000 paid in cash to the seller, $570,000 of working capital adjustments paid to the seller and $232,000 in transaction costs, consisting of legal and other professional service fees.

In accordance with the authoritative guidance on business combinations, the Company allocated the purchase price to the tangible assets, liabilities, and intangible assets acquired based on their estimated fair value. The excess purchase price over the fair value was recorded as goodwill.

The allocation of the purchase price of IntegrityBio was as follows (in thousands):

   
Amount
 
Fair value of net assets acquired
  $ 1,948  
Intangible assets
    2,860  
Goodwill
    5,440  
Total
  $ 10,248  
 
The fair value of IntegrityBio’s net assets as of the acquisition date was (in thousands):

   
Amount
 
Cash
  $ 32  
Accounts receivable
    789  
Plant, property and equipment
    1,379  
Accounts payable and other accrued liabilities
    (127 )
Accrued compensation
    (47 )
Deferred revenue
    (78 )
Fair value of IntegrityBio's net assets
  $ 1,948  

Identifiable intangible assets purchased in the IntegrityBio acquisition consisted of the following (in thousands, except for useful life) with a weighted average useful life of 4.9 years and no significant residual value estimated:

   
Amount
   
Useful Life (in years)
 
             
Customer Relationships
  $ 2,120       5  
Customer Backlog
    130       2  
Non-competing Agreement
    610       5  
Total
  $ 2,860          

Goodwill from IntegrityBio was recorded in the Symyx Research reporting unit of Symyx HPR and is expected to be deductible for income tax purposes. Subsequently in the fourth quarter of 2008, as part of the annual impairment analysis, goodwill from IntegrityBio acquisition was written-off. Additionally, the Company reduced the carrying value of identifiable intangible assets by $1,604,000 in connection with its review of the recoverability long-lived assets. See detail in Note 1 of the Notes to Consolidated Financial Statements.

Pro forma financial information is not provided because the results of operations of the acquired entity were not material to the historical results of operations of the Company.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Pursuant to the terms of the purchase agreement, the founder of IntegrityBio could have earned an additional $1.75 million in cash, so long as the founder serves as the Company’s employee continuously for 24 months from the acquisition date. Due to service requirements of this payment, the Company recorded the associated liabilities as compensation expenses rather than as part of the purchase price. Additionally, the Company recorded $327,000 additional purchase consideration calculated as 46% of total revenue generated by IntegrityBio during the period from September 1, 2009 to October 31, 2009. This liability, if determinable at the time of acquisition, would have been recorded to goodwill as part of the purchase price. The Company assessed the recoverablility of these amounts under the current circumstances and concluded that the goodwill resulting from the additional purchase consideration should be impaired in 2009. On November 1, 2009, in connection with the Company’s exiting of its CDMO business, the Company sold all the tangible and intangible assets from the IntegrityBio acquisition, and settled all the compensation liabilities and revenue share liabilities discussed above either earned through the selling date or potentially to be earned in the future under the purchase agreement, resulting in a loss of $2,009,000.

8. Acquisition of MDL Group Companies

On October 1, 2007, the Company acquired MDL Information Systems, Inc. (MDL) for $123,000,000 in cash. Of the cash paid, the Company and the seller placed $10,000,000 in escrow pending their determination of any detriments suffered or benefits enjoyed by MDL as a result of certain pre-closing intercompany transactions. The escrow account (including interest earned) was subsequently settled after a March 2008 net working capital adjustment payment of $4,954,000 to the Company, June 2008 distributions of $1,626,000 to the Company for withholding tax and professional fee reimbursement and $1,735,000 to the seller and final distribution of the remaining amount in the escrow account to the seller in July 2009.

The adjusted total purchase price for this acquisition was $121,474,000, consisting of approximately $118,046,000 in cash and $3,428,000 in transaction costs, consisting of banking, legal and other professional service fees.

The adjusted purchase price allocation is as follows (in thousands):

   
Amount
 
Fair value of net liabilities assumed
  $ (5,605 )
Accrued restructuring costs
    (6,823 )
In-process research and development
    2,500  
Intangible assets
    59,000  
Deferred tax liabilities
    (22,428 )
Goodwill
    95,150  
Total
  $ 121,794  

The adjusted fair values of MDL’s net liabilities as of the acquisition date were (in thousands):

   
Amount
 
Accounts receivable, net
  $ 4,417  
Prepaids and other assets
    3,549  
Plant, property and equipment
    4,851  
Accounts payable and other accrued liabilities
    (2,046 )
Accrued compensation
    (4,961 )
Deferred revenue
    (10,404 )
Fair value of MDL’s net liabilities
  $ (4,594 )

9. Related Party Transactions

The Company entered into a Collaborative Development and License Agreement in March 2005 and an Alliance Agreement in December 2005 with Intermolecular, Inc. (Intermolecular). Under these agreements, the two companies worked together to conduct research and development and other activities with respect to materials and high-throughput technology for use in semiconductor applications. Each party bore its own expenses. In November 2007, following the conclusion of the joint research and development activities, these agreements were amended. Under the amended agreements, the Company has an ongoing obligation to provide two employees to modify and integrate certain Symyx software with and into Intermolecular products and to provide Intermolecular access to certain Symyx equipment for development purposes. In August 2006, the Company invested $13,500,000 in exchange for approximately 13% of Intermolecular’s outstanding shares, and in December 2008 invested an additional $1,647,000. As of December 31, 2009, the Company owned approximately 12% of Intermolecular’s outstanding shares. The Company accounts for its ownership interest in Intermolecular using the cost method, because the Company does not have the ability to exercise significant influence over Intermolecular’s strategic, operating, investing and financing activities. Isy Goldwasser, the Company’s chief executive officer, is a director of Intermolecular. For the years ended December 31, 2009, 2008 and 2007, the Company recognized revenue from Intermolecular of $1,008,000, $1,418,000 and $912,000, respectively. As of December 31, 2009, the Company recorded $5,000 of deferred revenue and a $77,000 customer deposit from Intermolecular. As of December 31, 2008, the Company recorded $32,000 of deferred revenue and a $77,000 customer deposit from Intermolecular.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

10. Income Taxes

The Company’s income (loss) before taxes consisted of the following (in thousands):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
U. S.
  $ (3,605 )   $ (84,293 )   $ 31,510  
Foreign
    (2,680 )     (27,496 )     (2,028 )
Total
  $ (6,285 )   $ (111,789 )   $ 29,482  


The provision (benefit) for income taxes consisted of the following (in thousands):

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
Current:
                 
Federal
  $ (2,991 )   $ (4,503 )   $ 12,759  
State
    674       121       645  
Foreign
    (464 )     302       542  
Total
    (2,781 )     (4,080 )     13,946  
Deferred:
                       
Federal
    (2,090 )     908       (2,276 )
State
    10       800       472  
Foreign
    (286 )     (2,801 )     (1,444 )
Total
    (2,366 )     (1,093 )     (3,248 )
Provision (benefit) for income taxes
  $ (5,147 )   $ (5,173 )   $ 10,698  


Tax benefits or (deficiencies) resulting from the vesting of restricted stock units, the exercise of nonqualified stock options and the disqualifying dispositions of shares issued under the Company's stock-based compensation plans were approximately $19,000 in 2009, ($1,091,000) in 2008, and ($868,000) in 2007. Such benefits or deficiencies were recorded in additional paid-in capital.

 The reconciliation of federal statutory income tax (on pre-tax income after consideration of equity losses) to the Company’s provision (benefit) for income taxes is as follows (in thousands):


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

   
Years Ended December 31,
 
   
2009
   
2008
   
2007
 
Expected provision (benefit) at federal statutory rate
  $ (2,200 )   $ (39,126 )   $ 10,318  
State taxes, net of federal impact
    684       921       571  
Research and development credits
    (266 )     (493 )     (321 )
Permanent difference related to goodwill impairment
    -       24,761       -  
Permanent difference related to stock-based compensation
    237       230       366  
Permanent difference related to acquisitions
    -       -       875  
Permanent difference related to tax-exempt interest
    -       (50 )     (631 )
Change in liabilities for uncertain tax positions
    (699 )     -       -  
Valuation allowance for deferred tax assets
    (3,040 )     7,995       -  
Other individually immaterial items
    137       589       (480 )
Provision (benefit) for income taxes
  $ (5,147 )   $ (5,173 )   $ 10,698  
 
 
Deferred income taxes reflect the net tax effects of temporary differences between the carrying amounts of assets and liabilities for financial reporting purposes and the amounts used for income tax purposes. Significant components of the Company’s deferred tax assets and liabilities are as follows (in thousands):

   
December 31,
 
   
2009
   
2008
 
Deferred tax assets:
           
Net operating loss carry-forwards
  $ 2,916     $ 2,534  
Goodwill
    1,416       3,482  
Deferred revenue
    2,829       1,488  
Capitalized research and development
    167       349  
Depreciation
    6,887       11,069  
Stock-based compensation
    2,279       2,031  
Warranty expense accrual
    340       545  
Research and development and other credits
    2,683       2,102  
Other accruals and reserves
    3,159       2,927  
Total deferred tax assets before valuation allowance
    22,676       26,527  
Less valuation allowance for deferred tax assets
    (10,152 )     (12,485 )
Total deferred tax assets
    12,524       14,042  
Deferred tax liabilities:
               
Prepaid insurance and property tax
    (367 )     (452 )
Intangible assets
    (15,588 )     (18,023 )
Total deferred tax liabilities
    (15,955 )     (18,475 )
Net deferred tax liabilities
  $ (3,431 )   $ (4,433 )


U.S. income taxes were not provided on undistributed earnings from investments in certain non-U.S. subsidiaries. Determination of the amount of unrecognized deferred tax liability for temporary differences related to investments in these non-U.S. subsidiaries that are essentially permanent in duration is not practicable. The Company currently intends to reinvest these earnings in operations outside the U.S.

As of December 31, 2009, the Company had federal net operating loss carryforwards of approximately $127,000. The net operating losses from the acquisition of Synthematix is subject to an annual limitation due to the ownership change limitations provided by the Internal Revenue Code of 1986, as amended, and similar state provisions. The annual limitation may result in the expiration of net operating losses and credits before utilization. The net operating loss carryforwards will start to expire in 2010, if not utilized. As of December 31, 2009, the Company had California net operating loss carryforwards of approximately $33,312,000, which will start to expire in 2019, if not utilized. As of December 31, 2009, the Company also had Swiss net operating loss carryforwards of approximately $4,879,000, which will start to expire in 2014, if not utilized.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

As of December 31, 2009, the Company had federal and California research and development tax credit carryforwards of approximately $472,000 and $4,415,000, respectively. The state research and development credits have no expiration date. The research and development tax credits from the acquisitions of IntelliChem and Synthematix is subject to an annual limitation of Section 383 due to ownership change limitations provided by the Internal Revenue Code of 1986, as amended, and similar state provisions.

Valuation Allowance

Income tax expense is recorded using the asset and liability method. Deferred tax assets and liabilities are recognized for the expected future tax consequences attributable to temporary differences between amounts reported for income tax purposes and financial statement purposes, using current tax rates. In 2008, the Company recorded a $12,485,000 valuation allowance (including $7,995,000 for federal deferred tax assets and $4,490,000 for state deferred tax assets) as a result of uncertainties related to the realization of its net deferred tax assets at December 31, 2008. In 2009, the Company conducted a study of the tax depreciable lives for certain of its fixed assets placed in service after January 1, 2002. Using the result of the study, the Company reassessed the valuation allowance associated with certain federal deferred tax assets and released $1,976,000 of such allowance. Additionally in the fourth quarter of 2009, the Company sold its CDMO business, resulting in the release of additional $1,064,000 of such allowance upon the realization of certain federal deferred tax assets established for goodwill and intangible assets that were deductible for tax purposes. In 2009, the Company recorded additional $707,000 valuation allowance against the state deferred tax assets. The net change of valuation allowance from 2008 to 2009 was $2,333,000.

The valuation allowance was established as a result of weighing all the positive and negative evidence, including the Company’s history of cumulative losses over the past three years and the difficulty of forecasting sufficient future taxable income. The valuation allowance reflects the conclusion of the management that it is more likely than not that the benefits from certain deferred tax assets will not be realized. If actual results differ from these estimates or these estimates are adjusted in future periods, the valuation allowance may require adjustment which could materially impact the Company’s financial position and results of operations.

Accounting for Uncertainty in Income Taxes

In June 2006, the FASB issued the authoritative guidance on accounting for uncertainty in income taxes, which clarifies the accounting for income taxes by prescribing the minimum recognition threshold a tax position must meet before being recognized in the financial statements. Under the authoritative guidance on accounting for uncertainty in income taxes, the impact of an uncertain income tax position on the income tax return must be recognized at the largest amount that is more-likely-than-not to be sustained upon audit by the relevant taxing authority. An uncertain income tax position will not be recognized if it has less than a 50% likelihood of being sustained. Additionally, the authoritative guidance on accounting for uncertainty in income taxes provides guidance on derecognition, measurement, classification, interest and penalties, accounting in interim periods, disclosure and transition.

The following is a tabular reconciliation of the total amounts of unrecognized tax benefits for the years ended December 31, 2009 and 2008 (in thousands):


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

   
2009
   
2008
   
2007
 
Unrecognized tax benefit at January 1
  $ 4,693     $ 4,965     $ 4,273  
Increase (decrease) in tax positions for prior period
    (124 )     (590 )     287  
Increase (decrease) in tax positions for current period
    220       318       526  
Lapse of statute of limitations
    (1,569 )     -       (121 )
Total unrecognized tax benefit at December 31
  $ 3,220     $ 4,693     $ 4,965  

Included in the balance of unrecognized tax benefits at December 31, 2009, was $379,000 of tax benefits that, if recognized, would affect the effective tax rate.

The Company recognizes interest accrued related to unrecognized income tax benefits in interest expense and penalties as a component of the income tax provision, in the accompanying Consolidated Statement of Operations. Related to the uncertain tax benefits noted above, the Company has recognized a liability for interest and penalties of $232,000 and $455,000 as of December 31, 2009 and 2008, respectively.

The Company is subject to taxation in the U.S. and various state and foreign jurisdictions. The Company is not currently under audit by any tax authorities and is generally not subject to tax examinations for years prior to 2005.

The Company does not anticipate the total amounts of unrecognized income tax benefits will significantly increase or decrease within the next 12 months of the reporting date.

The Company assessed the impact of uncertainties in tax positions taken by the MDL Group Companies in periods prior to the acquisition. Based upon this assessment, no liabilities under the authoritative guidance on accounting for uncertainty in income taxes were recorded on the opening balance sheet. By operation of tax law, the seller of the MDL Group of Companies retains the primary obligation for most pre-acquisition U.S. tax liabilities.  In addition, by the terms of the acquisition agreement, the seller of the MDL Group of Companies has agreed to indemnify the Company for any income tax liabilities related to pre-acquisition periods.

11. Intangible Assets

The Company acquired certain patent rights and know-how from third parties. It also obtained certain intangible assets in various business combinations. These intangible assets are being amortized on a straight-line basis over the estimated useful lives of the assets. Because some of the intangible assets related to the Autodose acquisition were recorded in foreign currencies, the balance of these intangible assets may be affected by foreign currency exchange rate fluctuations when converted to U.S. dollars at each reporting period. As discussed in Note 1 of the Notes to Consolidated Financial Statements, the Company evaluated the recoverability of intangible assets and recorded an impairment charge of $2,574,000 in 2008. The current estimated weighted-average useful lives and carrying amounts of these intangible assets are as follows (in thousands, except for useful lives):


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

         
December 31, 2009
 
   
Weighted-Average Useful Lives (Years)
   
Gross Carrying Amount
   
Accumulated Amortization
   
Net Carrying Amount
 
Acquired technology
    5.0     $ 2,974     $ (2,974 )   $ -  
Acquired technology
    5.0     $ 2,974     $ (2,974 )   $ -  
Trade name
    3.4       1,752       (1,325 )   $ 427  
Core/Developed technology
    5.7       23,164       (15,574 )   $ 7,590  
Customer relationships
    7.8       39,825       (14,101 )   $ 25,724  
Proprietary content
    6.0       7,800       (2,925 )   $ 4,875  
License agreements
    3.0       4,400       (3,300 )   $ 1,100  
Bargain lease
    8.0       1,300       (366 )   $ 934  
Total intangibles
    6.6     $ 81,215     $ (40,565 )   $ 40,650  


         
December 31, 2009
 
   
Weighted-Average Useful Lives (Years)
   
Gross Carrying Amount
   
Accumulated Amortization
   
Net Carrying Amount
 
Acquired technology
    5.0       2,973       (2,874 )     99  
Acquired technology
    5.0       2,973       (2,874 )     99  
Trade name
    3.3       1,697       (781 )     916  
Core/Developed technology
    5.7       23,168       (12,611 )     10,557  
Customer relationships
    7.7       40,736       (9,139 )     31,597  
Proprietary content
    6.0       7,800       (1,625 )     6,175  
License agreements
    3.0       4,400       (1,833 )     2,567  
Bargain lease
    8.0       1,300       (203 )     1,097  
Customer backlog
    2.0       66       (25 )     41  
Non-compete agreement
    5.0       266       (47 )     219  
Total intangibles
    6.5     $ 82,406     $ (29,138 )   $ 53,268  


In the years ended December 31, 2009, 2008 and 2007, the Company recorded amortization expense for intangible assets of $11,798,000, $13,542,000, and $6,418,000, respectively. Assuming no subsequent impairment of the underlying assets, the annual amortization expense of total intangible assets is expected to be approximately $9,880,000 in 2010, $7,859,000 in 2011, $7,307,000 in 2012, $6,845,000 in 2013, $5,487,000 in 2014 and $3,272,000 thereafter.

12. Financial Instruments

The Company has not entered into any derivative contracts at December 31, 2009. It maintains cash and cash equivalents in treasury-bill money market funds. The following methods and assumptions were used by the Company in estimating its fair value disclosures for financial instruments:

Cash and cash equivalents: The carrying amounts reported in the balance sheets for cash and cash equivalents are their fair values. The fair value for cash equivalents are based on quoted market prices.

Accounts receivable and accounts payable: The carrying amounts reported in the balance sheets for accounts receivable and accounts payable approximate their fair values. The Company generally does not require any collateral from the customers to support accounts receivables.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

13. Restructuring Charges

In the third quarter of 2009, the Company recorded a $710,000 restructuring charge, which included $801,000 of severance and facility exit costs in the United Kingdom as part of the Company’s effort to consolidate its offshore software development activities. In the fourth quarter of 2009, the Board of Directors committed the Company to a plan to restructure its HPR business unit. The restructuring plan is being implemented to address underperformance in the Company’s CDMO operation acquired as part of the IntegrityBio acquisition, and to address the anticipated decline in research services following 2009 as commitments from Dow and ExxonMobil expire.  As part of the restructuring plan, the Company has exited its CDMO operations and reduced its overall HPR staffing by approximately 75 employees, representing a 15% reduction in the Company’s total current headcount. As a result, the Company recorded $1,660,000 restructuring charges in the fourth quarter of 2009. In the table below, all restructuring activities in 2009 were referred to as the “2009 Plan.”  These charges have been aggregated and appear as “Restructuring Charges” in the Company’s Consolidated Statements of Operations.

In order to realign its operations to drive performance and improve operating efficiency, on December 3, 2008, the Company initiated a reorganization plan (2008 Plan) to combine Symyx Tools and Symyx Research to create Symyx HPR.  The 2008 Plan included a worldwide reduction in force of approximately 90 employees and the consolidation of certain facilities.

The Company recorded total restructuring charges of $4,952,000 in the fourth quarter of 2008, consisting of $3,701,000 of severance and one-time benefits, $1,251,000 of exit costs of facilities, write-off of related fixed assets and associated legal costs. These charges have been aggregated and appear as “Restructuring Charges” in the Company’s Consolidated Statements of Operations.

The Company estimated the cost of exiting and terminating facility leases or acquired leases by referring to the contractual terms of the agreements and by evaluating the current real estate market conditions. In addition, the Company has estimated sublease income by evaluating the current real estate market conditions or, where applicable, by referring to amounts being negotiated. The ability to generate this amount of sublease income, as well as the ability to terminate lease obligations at estimated amounts, is highly dependent upon the commercial real estate market conditions in certain geographies at the time the evaluations and negotiations are performed.

The amounts we have accrued represent the Company’s best estimate of the obligations expect to be incurred and could be subject to adjustment as market conditions change.

On October 2, 2007, in connection with the MDL Acquisition, the Company announced a restructuring plan (2007 Plan) to terminate approximately 120 employees of the Company, comprised of approximately 100 positions in the United States and approximately 20 positions internationally. Total estimated restructuring termination benefits were $7,040,000, consisting primarily of involuntary employee termination benefits. Of the total restructuring charges, $6,823,000 was associated with the former MDL employees and therefore was accrued as part of the liabilities assumed at the time of the MDL acquisition according to the authoritative guidance on accounting for business combinations, as well as the authoritative guidance on recognition of liabilities in connection with a purchase business combination. The remaining balance associated with the termination of employees of the acquiring company was recorded as part of the operating expenses according to the authoritative guidance on accounting for costs associated with exit or disposal activities. As of December 31, 2009, the Company completed the majority of the 2007 plan but estimates that up to $39,000 may yet be incurred in legal fees pertaining to the termination of certain former employees of MDL.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

The following table illustrates the change in accrued restructuring costs during the year ended December 31, 2009 (in thousands):

   
2007 Plan
   
2008 Plan
   
2009 Plan
   
Total
 
Balance as of January 1, 2008
  $ 2,275     $ -     $ -     $ 2,275  
New charges accrued during the period
    723       4,952       -       5,675  
Payments made during the period
    (1,663 )     (442 )     -       (2,105 )
Non-cash liabilities settled during the period
    -       (583 )     -       (583 )
Adjustments to liabilities during the period, including foreign currency exchange rate effect
    (684 )     -       -       (684 )
Balance as of December 31, 2008
    651       3,927       -       4,578  
New charges accrued during the period
    -       407       2,369       2,776  
Payments made during the period
    (153 )     (3,777 )     (785 )     (4,715 )
Non-cash liabilities settled during the period
    -       -       (102 )     (102 )
Adjustments to liabilities during the period, including foreign currency exchange rate effect
    (459 )     (60 )     96       (423 )
Balance as of December 31, 2009
  $ 39     $ 497     $ 1,578     $ 2,114  

The following table illustrates the change in accrued restructuring costs by business segment during the year ended December 31, 2009 for 2009 Plan only (in thousands). The Company did not implement a reporting system prior to 2009 to segregate restructuring charges by business segment. It is impracticable to restate prior periods to be consistent with the current period presentation.
 
   
Symyx Software
   
Symyx HPR
   
Total
 
Balance as of December 31, 2008
  $ -     $ -     $ -  
New charges accrued during the period
    809       1,560       2,369  
Payments made during the period
    (544 )     (241 )     (785 )
Non-cash liabilities settled during the period
    (102 )             (102 )
Adjustments to liabilities during the period, including foreign currency exchange rate effect
    96               96  
Balance as of December 31, 2009
  $ 259     $ 1,319     $ 1,578  

14. Subsequent Events

On February 11, 2010, and following an extensive sales process led by our financial advisors, the Company announced the execution of a definitive agreement (Divestiture Agreement) to divest its HPR business unit (the Divestiture) pursuant to which the Company will divest HPR’s tools operations and certain of its recently restructured contract research services operations to a newly formed company, HPR Global, Inc. (HPR Global).  HPR’s president, John S. Senaldi, resigned his employment from Symyx prior to the signing of the Divestiture Agreement to lead the acquisition of HPR assets as founder and chief executive officer of HPR Global.  Pursuant to the Divestiture Agreement, the Company will transfer to HPR Global substantially all existing HPR physical assets and certain intellectual property assets, including a portion of its patent portfolio and certain components of its Lab Execution and Analysis software suite.  The total carrying amounts of major classes of assets to be disposed of are listed below:

Property, plant and equipment
  $ 1,661  
Goodwill
    449  
Intangible assets
    931  
Total
  $ 3,041  
 

Symyx also expects to provide approximately $8.6 million of positive net working capital (mostly in cash) at closing.  In return, Symyx expects to receive a $10.0 million note and common stock representing an approximately 19.5% equity interest in HPR Global. Symyx will retain all existing rights to royalties and licensing fees previously included in HPR, as well as relevant patents underlying these entitlements.  Finally, the Company anticipates HPR Global will offer employment to substantially all current HPR employees following the closing of the Divestiture.  Symyx expects to close the Divestiture by the end of March 2010, and to conclude certain remaining legacy chemical research services contracts by the end of the second quarter of 2010.  As a result of these actions, Symyx will conclude all HPR activities other than its ongoing license and royalty entitlements.


SYMYX TECHNOLOGIES, INC.
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

15. Quarterly Results of Operations (Unaudited)

The following is a summary of the quarterly results of operations for the years ended December 31, 2009 and 2008 (in thousands, except per share amounts).
 
   
Three Months Ended
 
2009
 
March 31,
   
June 30,
   
September 30,
   
December 31,
 
Total revenue
  $ 33,394     $ 36,627     $ 34,967     $ 45,458  
Total costs
    10,744       12,492       11,027       14,113  
Gross Profit
    22,650       24,135       23,940       31,345  
Operating expenses:
                               
Research and development
    13,566       13,343       12,764       12,677  
Sales, general and administrative
    11,097       11,373       10,397       12,204  
Restructuring charges (a)
    208       -       710       1,660  
Impairment to goodwill, intangibles, and other long-lived assets (b)
    -       -       284       43  
Amortization of intangible assets
    1,445       1,447       1,448       1,451  
Total operating expenses
    26,316       26,163       25,603       28,035  
Income (loss) from operations
    (3,666 )     (2,028 )     (1,663 )     3,310  
Loss from sale of IntegrityBio business
    -       -       -       (2,009 )
Interest and other income (expense), net
    (1,047 )     445       521       (148 )
Income (loss) before income tax provision and equity loss
    (4,713 )     (1,583 )     (1,142 )     1,153  
Income tax benefit
    1,606       345       2,632       564  
Net income (loss)
  $ (3,107 )   $ (1,238 )   $ 1,490     $ 1,717  
Basic net income (loss) per share
  $ (0.09 )   $ (0.04 )   $ 0.04     $ 0.05  
Diluted net income (loss) per share
  $ (0.09 )   $ (0.04 )   $ 0.04     $ 0.05  
                                 
                                 
   
Three Months Ended
 
2008
 
March 31,
   
June 30,
   
September 30,
   
December 31,
 
Total revenue
  $ 36,907     $ 40,651     $ 38,909     $ 42,578  
Total Costs
    10,237       10,387       10,397       13,748  
Gross Profit
    26,670       30,264       28,512       28,830  
Operating expenses:
                               
Research and development
    20,687       19,729       18,814       16,135  
Sales, general and administrative
    15,233       14,288       12,375       12,693  
Restructuring charges (a)
    -       -       -       4,952  
Impairment to goodwill, intangibles, and other long-lived assets (b)
    -       -       -       90,330  
Amortization of intangible assets
    1,477       1,479       1,476       1,471  
Total operating expenses
    37,397       35,496       32,665       125,581  
Loss from operations
    (10,727 )     (5,232 )     (4,153 )     (96,751 )
Gain from sale of equity interest in Ilypsa, Inc.
    -       -       4,939       -  
Interest and other income (expense), net
    (396 )     2,792       (1,692 )     (569 )
Loss before income tax provision and equity loss
    (11,123 )     (2,440 )     (906 )     (97,320 )
Income tax benefit (expense)
    4,331       915       161       (234 )
Net loss
  $ (6,792 )   $ (1,525 )   $ (745 )   $ (97,554 )
Basic net loss per share
  $ (0.20 )   $ (0.05 )   $ (0.02 )   $ (2.87 )
Diluted net loss per share
  $ (0.20 )   $ (0.05 )   $ (0.02 )   $ (2.87 )
 
 
(a) See Note 13 of the Notes to Consolidated Financial Statements for detail discussion.
(b) See Note 1 of the Notes to Consolidated Financial Statements for detail discussion.


ITEM 9.  CHANGES IN AND DISAGREEMENTS WITH ACCOUNTANTS ON ACCOUNTING AND FINANCIAL DISCLOSURE

None

ITEM 9A. CONTROLS AND PROCEDURES

EVALUATION OF DISCLOSURE CONTROLS AND PROCEDURES

Our management, with the participation of our chief executive officer and chief financial officer, evaluated the effectiveness of our disclosure controls and procedures (as defined in Rule 13a-15 under the Securities Exchange Act of 1934 (the “Exchange Act”)) as of the end of the period covered by this Annual Report on Form 10-K. In designing and evaluating the disclosure controls and procedures, management recognizes that any controls and procedures, no matter how well designed and operated, can provide only reasonable assurance of achieving the desired control objectives. In addition, the design of disclosure controls and procedures must reflect the fact that there are resource constraints and that management is required to apply its judgment in evaluating the benefits of possible controls and procedures relative to their costs.

Based on our evaluation, our chief executive officer and chief financial officer concluded that, as of the end of the period covered by this report, our disclosure controls and procedures are designed at a reasonable assurance level and are effective to provide reasonable assurance that information we are required to disclose in reports that we file or submit under the Exchange Act is recorded, processed, summarized, and reported within the time periods specified in Securities and Exchange Commission rules and forms, and that such information is accumulated and communicated to our management, including our chief executive officer and chief financial officer, as appropriate, to allow timely decisions regarding required disclosure. 

LIMITATIONS ON THE EFFECTIVENESS OF CONTROLS

Our disclosure controls and procedures are designed to provide reasonable, not absolute, assurance that the objectives of our disclosure control system are met. Because of inherent limitations in all control systems, no evaluation of controls can provide absolute assurance that all control issues, if any, within a company have been detected. Our chief executive officer and chief financial officer have concluded, based on their evaluation as of the end of the period covered by this report, that our disclosure controls and procedures were sufficiently effective to provide reasonable assurance that the objectives of our disclosure control system were met.

CHANGES IN INTERNAL CONTROL OVER FINANCIAL REPORTING

There were no changes in our internal control over financial reporting that occurred during the fourth fiscal quarter ended December 31, 2009 that have materially affected, or are reasonably likely to materially affect, our internal control over financial reporting.

MANAGEMENT REPORT ON INTERNAL CONTROL OVER FINANCIAL REPORTING

As required by the SEC rules and regulations for the implementation of Section 404 of Sarbanes-Oxley Act, our management is responsible for establishing and maintaining adequate internal control over financial reporting. Our internal control over financial reporting is designed to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles and includes those policies and procedures that: (i) pertain to the maintenance of records that, in reasonable detail, accurately and fairly reflect the transactions and dispositions of Symyx’s assets;  (ii) provide reasonable assurance that transactions are recorded as necessary to permit preparation of financial statements in accordance with generally accepted accounting  principles, and that Symyx’s receipts and expenditures are being made only in accordance with authorizations of Symyx’s management and Board Directors; and (iii) provide reasonable assurance regarding prevention or timely detection of unauthorized acquisition, use or disposition of Symyx’s assets that could have a material effect on the financial statements.


Because of its inherent limitations, internal control over financial reporting may not prevent or detect misstatements. Projections of any evaluation of effectiveness to future periods are subject to the risks that controls may become inadequate because of changes in conditions or that the degree of compliance with the policies or procedures may deteriorate.

Symyx’s management assessed the effectiveness of Symyx’s internal control over financial reporting as of December 31, 2009. In making this assessment, Symyx’s management used criteria set forth by the Committee of Sponsoring Organizations of the Treadway Commission (COSO) in Internal Control-Integrated Framework.

Based on its assessment, Symyx’s management believes that, as of December 31, 2009, Symyx’s internal control over financial reporting was effective based on the criteria set forth by COSO.

Symyx’s independent registered public accounting firm, Ernst & Young LLP, has issued an attestation report on management’s assessment of Symyx’s internal control over financial reporting. This report is included below.

Report of Independent Registered Public Accounting Firm

The Board of Directors and Stockholders of Symyx Technologies, Inc.

We have audited Symyx Technologies, Inc.’s internal control over financial reporting as of December 31, 2009, based on criteria established in Internal Control—Integrated Framework issued by the Committee of Sponsoring Organizations of the Treadway Commission (the COSO criteria). Symyx Technologies, Inc.’s management is responsible for maintaining effective internal control over financial reporting, and for its assessment of the effectiveness of internal control over financial reporting included in the accompanying Management Report on Internal Control over Financial Reporting. Our responsibility is to express an opinion on the company’s internal control over financial reporting based on our audit.

We conducted our audit in accordance with the standards of the Public Company Accounting Oversight Board (United States). Those standards require that we plan and perform the audit to obtain reasonable assurance about whether effective internal control over financial reporting was maintained in all material respects. Our audit included obtaining an understanding of internal control over financial reporting, assessing the risk that a material weakness exists, testing and evaluating the design and operating effectiveness of internal control based on the assessed risk, and performing such other procedures as we considered necessary in the circumstances. We believe that our audit provides a reasonable basis for our opinion.

A company’s internal control over financial reporting is a process designed to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles. A company’s internal control over financial reporting includes those policies and procedures that (1) pertain to the maintenance of records that, in reasonable detail, accurately and fairly reflect the transactions and dispositions of the assets of the company; (2) provide reasonable assurance that transactions are recorded as necessary to permit preparation of financial statements in accordance with generally accepted accounting principles, and that receipts and expenditures of the company are being made only in accordance with authorizations of management and directors of the company; and (3) provide reasonable assurance regarding prevention or timely detection of unauthorized acquisition, use, or disposition of the company’s assets that could have a material effect on the financial statements.

Because of its inherent limitations, internal control over financial reporting may not prevent or detect misstatements. Also, projections of any evaluation of effectiveness to future periods are subject to the risk that controls may become inadequate because of changes in conditions, or that the degree of compliance with the policies or procedures may deteriorate.
 
In our opinion, Symyx Technologies, Inc. maintained, in all material respects, effective internal control over financial reporting as of December 31, 2009, based on the COSO criteria.
 
We also have audited, in accordance with the standards of the Public Company Accounting Oversight Board (United States), the 2009 consolidated financial statements of Symyx Technologies, Inc. and our report dated February 26, 2010 expressed an unqualified opinion thereon.

 
/s/ Ernst & Young LLP

San Jose, California

February 26, 2010
 
ITEM 9A(T). CONTROLS AND PROCEDURES

Not applicable.

ITEM 9B. OTHER INFORMATION
 
On February 26, 2010, the Compensation Committee and the Board of Directors approved the following increases in the 2009 bonuses payable to two executive officers of the Company:  $10,000 to Charles D. Haley, Senior Vice President and General Counsel; and $10,000 to Richard Rosenthal, Senior Vice President, Finance, bringing their total 2009 cash bonuses to $70,000 and $72,500, respectively.


PART III
 
Certain information required by Part III is omitted from this Annual Report on Form 10-K because the registrant will file with the U.S. Securities and Exchange Commission a definitive proxy statement pursuant to Regulation 14A in connection with the solicitation of proxies for Symyx’s Annual Meeting of Stockholders expected to be held in June 2010 (the Proxy Statement) not later than 120 days after the end of the fiscal year covered by this Annual Report on Form 10-K, and certain information included therein is incorporated herein by reference.

ITEM 10.  DIRECTORS, EXECUTIVE OFFICERS AND CORPORATE GOVERNANCE

The information required by this item with respect to directors and executive officers may be found under the caption “Executive Officers of the Registrant” in Part I, Item 1 of this Annual Report on Form 10-K, and in the section entitled “Proposal 1 - Election of Directors” appearing in the Proxy Statement. Such information is incorporated herein by reference.

The information required by this Item with respect to our audit committee and audit committee financial expert may be found in the section entitled “Proposal 1 - Election of Directors - Audit Committee” appearing in the Proxy Statement. Such information is incorporated herein by reference.

The information required by this Item with respect to compliance with Section 16(a) of the Securities Exchange Act of 1934 may be found in the section entitled “Section 16(a) Beneficial Ownership Reporting Compliance” appearing in the Proxy Statement. Such information is incorporated herein by reference.

Symyx has adopted a Code of Conduct and Ethics that applies to its employees, including principal executive officer, principal financial officer and controller, within the meaning of Section 404 of the Sarbanes-Oxley Act of 2002 and the rules promulgated thereunder. A copy of the Code of Conduct and Ethics is available at Symyx’s website: www.symyx.com and without charge upon written request to: Corporate Secretary, 415 Oakmead Parkway, Sunnyvale, CA 94085. To the extent required by the law, amendments to, and waivers from, any provision of Symyx’s Code of Conduct and Ethics will promptly be disclosed to the public. To the extent permitted by such legal requirements, Symyx intends to make such public disclosure by posting such information on Symyx’s website in accordance with SEC rules.

ITEM 11.  EXECUTIVE COMPENSATION

The information required by this Item with respect to director and executive officer compensation is incorporated herein by reference from the information under the caption “Executive Officer and Director Compensation.”

The information required by this Item with respect to Compensation Committee interlocks and insider participation is incorporated herein by reference to the information from the Proxy Statement under the section entitled “Compensation Committee Interlocks and Insider Participations.”

The information required by this Item with respect to our Compensation Committee’s review and discussion of the Compensation Discussion and Analysis included in the Proxy Statement is incorporated herein by reference to the information from the Proxy Statement under the section entitled “Compensation Committee Report.”

ITEM 12.  SECURITY OWNERSHIP OF CERTAIN BENEFICIAL OWNERS AND MANAGEMENT AND   RELATED STOCKHOLDER MATTERS

The information required by this Item with respect to security ownership of certain beneficial owners and management is incorporated herein by reference to the information appearing in the Proxy Statement under the heading “Security Ownership of Certain Beneficial Owners and Management.”

 
Equity Compensation Plan Information

The following table provides information as of December 31, 2009 with respect to shares of our common stock issuable under our existing equity compensation plans.
 
    A     B     C     D     E    
                                 
Plan Category
 
Number of Securities to Be Issued Upon Exercise of Outstanding Options
   
Weighted Average Exercise Price of Outstanding Options
   
Number of Securities to Be Issued Upon Vesting of Outstanding Restricted Stock Units
   
Weighted Average Grant Price of Outstanding Restricted Stock Units
   
Number of Securities Remaining Available for Future Issuance Under Equity Compensation Plans (Excluding Securities Reflected in Columns A and C)
   
                                           
Equity Compensation Plans Approved by Stockholders (1)
    4,095,820  

 
(3)
  $ 15.19       468,957     $ 4.94       6,988,997  

 
(4)
 
Equity Compensation Plans Not Approved by Stockholders (2)
    367,418     $ 6.93       -               16,688    
Total
    4,463,238     $ 14.51       468,957     $ 4.94       7,005,685    
 
 

(1)
Consists of the 2007 Stock Incentive Plan (2007 Stock Plan) and the 1999 Employee Stock Purchase Plan (ESPP).

(2)
Consists of 2001 Nonstatutory Plan, IntelliChem, Inc. 2003 Stock Option Plan assumed in connection with the IntelliChem acquisition and the Synthematix, Inc. 2000 Equity Compensation Plan, as amended, assumed in connection with the Synthematix acquisition. A description of these plans is available in Note 4 of the Notes to Consolidated Financial Statements.

(3)
Excludes purchase rights accruing under our ESPP which has a stockholder approved reserve of 1,879,110 shares as of December 31, 2009. Under the ESPP, each eligible employee may purchase up to a maximum of 10,000 shares per annum of common stock at semi-annual intervals on the last United States business day of April and October each year at a purchase price per share equal to 85% of the lower of (i) the closing selling price per share of common stock on the employee’s entry date into the 12-month offering period in which that semi-annual purchase date occurs or (ii) the closing selling price per share on the semi-annual purchase date.  Eligible employees may defer up to 10% of their salary, but not to exceed $25,000, in any calendar year, to purchase shares under this Plan.

(4)
Consists of shares available for future issuance under our 2007 Stock Plan and ESPP. As of December 31, 2009, an aggregate of 1,879,110 shares of common stock were available for issuance under ESPP and 5,109,887 shares of common stock were available for issuance under the 2007 Stock Plan.

(5)
Under our 2007 Stock Plan, the grant of each one (1) share of common stock subject to any type of award, other than a stock option or stock appreciation right, shall reduce the number of shares available under the 2007 Stock Plan by one and sixty-five hundredths (1.65) shares.

ITEM 13.  CERTAIN RELATIONSHIPS AND RELATED TRANSACTIONS AND DIRECTOR INDEPENDENCE

The information required by this item with respect to related party transaction is incorporated herein by reference to the information under the caption “Certain Relationships and Related Transactions” in the Proxy Statement.

The information required by this Item with respect to director independence is incorporated herein by reference to the information in the Proxy Statement in the section entitled “Proposal 1 - Election of Directors - Independence of the Board of Directors.”

ITEM 14.  PRINCIPAL ACCOUNTING FEES AND SERVICES

The information required by this item is incorporated by reference to the information under the proposal with the caption “Ratification of Selection of Independent Registered Public Accounting Firm” under the caption “Principal Accounting Fees and Services” in the Proxy Statement.


PART IV

ITEM 15. EXHIBITS AND FINANCIAL STATEMENT SCHEDULES

(a)( 1).  FINANCIAL STATEMENTS

The following Financial Statements of Symyx Technologies, Inc. and the Report of Ernst & Young LLP, Independent Registered Public Accounting Firm, have been filed as part of this Annual Report on Form 10-K. See index to Consolidated Financial Statements under Item 8 above:

Report
of Independent Registered Public Accounting Firm
Consolidated
Balance Sheets at December 31, 2009 and 2008
Consolidated
Statements of Operations for the Years Ended December 31, 2009, 2008 and 2007
Consolidated
Statements of Stockholders’ Equity for the Years Ended December 31, 2009, 2008 and 2007
Consolidated
Statements of Cash Flows for the Years Ended December 31, 2009, 2008 and 2007
Notes
to Consolidated Financial Statements

(a) (2).  FINANCIAL STATEMENT SCHEDULES

All schedules are omitted as the required information is inapplicable or the information is presented in the Consolidated Financial Statements and notes thereto in Item 8 above.

(a) (3).  EXHIBITS

Refer to (b) below.

(b) EXHIBITS
 
See the Exhibit Index which follows the signature page of this Annual Report on Form 10-K, which is incorporated here by reference.


SIGNATURES

Pursuant to the requirements of the Securities Exchange Act of 1934, the Registrant has duly caused this report to be signed on its behalf by the undersigned, thereunto duly authorized.


 
SYMYX TECHNOLOGIES, INC.
 
     (Registrant)
     
     
Date:  February 26, 2010
      /s/ Isy Goldwasser
 
 
Isy Goldwasser
 
Chief Executive Officer
 
(Principal Executive Officer)
     
     
Date:  February 26, 2010
      /s/ Rex S. Jackson
 
 
Rex S. Jackson
 
Executive Vice President,
 
Chief Financial Officer
 
(Principal Financial Officer)

 
POWER OF ATTORNEY

KNOW ALL PERSONS BY THESE PRESENTS, that each person whose signature appears below constitutes and appoints Isy Goldwasser, Rex S. Jackson and Richard J. Rosenthal, or any of them, each with the power of substitution, his attorney-in-fact, to sign any amendments to this Annual Report on Form 10-K, and to file the same, with exhibits thereto and other documents in connection therewith, with the Securities and Exchange Commission, hereby ratifying and confirming all that each of said attorneys-in-fact, or his substitute or substitutes, may do or cause to be done by virtue hereof.

Pursuant to the requirements of the Securities Exchange Act of 1934, this report has been signed below by the following persons on behalf of the registrant and in the capacities and on the dates indicated.

 
Signature
 
Title
 
Date
           
By
/s/ ISY GOLDWASSER
 
Chief Executive Officer and Director
 
February 26, 2010
 
Isy Goldwasser
 
(Principal Executive Officer)
   
           
By
/s/ REX S. JACKSON
 
Executive Vice President
 
February 26, 2010
 
Rex S. Jackson
  and Chief Financial Officer    
     
(Principal Financial Officer)
   
           
By
/s/ RICHARD J. ROSENTHAL
 
Senior Vice President of Finance
 
February 26, 2010
 
Richard J. Rosenthal
 
(Principal Accounting Officer)
   
           
By
/s/ STEVEN D. GOLDBY
 
Chairman of the Board
 
February 26, 2010
 
Steven D. Goldby
       
           
By
/s/ G. STEPHEN DECHERNEY
 
Director
 
February 26, 2010
 
G. Stephen DeCherney
       
           
By
/s/ TIMOTHY HARKNESS
 
Director
 
February 26, 2010
 
Timothy Harkness
       
           
By
/s/ DAVID C. HILL
 
Director
 
February 26, 2010
 
David C. Hill
       
           
By
/s/ BRUCE A. PASTERNACK
 
Director
 
February 26, 2010
 
Bruce A. Pasternack
       
           
By
/s/ CHRIS VAN INGEN
 
Director
 
February 26, 2010
 
Chris van Ingen
       


EXHIBIT INDEX
 
Exhibit Number
   
Description of Document
*2.1
(7)
 
Agreement and Plan of Merger, dated as of November 12, 2004, by and among Symyx Technologies, Inc., and  IntelliChem, Inc.
#2.2
(20)
 
Sale Agreement by and among Elsevier Inc., Elsevier Swiss Holdings S.A., Elsevier Japan KK, Elsevier Limited and MDL Information Systems (UK) Limited as sellers and Symyx Technologies, Inc. as buyer
(33)
 
Asset Purchase Agreement, dated as of February 11, 2010, by and among HPR Global, Inc., Symyx Technologies, Inc., and Symyx Solutions, Inc.
 3.1
(1)
 
Amended and Restated Certificate of Incorporation
 3.2
(18)
 
Amended and Restated Bylaws of Symyx Technologies, Inc.
 3.3
(8)
 
Certificate of Amendment to the Amended and Restated Bylaws of Symyx Technologies, Inc.
 4.1
(2)
 
Specimen Common Stock Certificate
**10.1
(9)
 
Synthematix, Inc. Amended and Restated 2000 Equity Compensation Plan and forms of agreements thereunder
**10.2
(2)
 
1996 Stock Plan and forms of agreements thereunder
**10.3
(11)
 
Amended and Restated 1997 Stock Plan and forms of agreements thereunder
**10.4
(31)
 
1999 Employee Stock Purchase Plan, as amended
**10.8
(16)
 
Form of Restricted Stock Agreement under the Symyx Technologies, Inc. 1997 Stock Plan
10.10
(2)
 
Collaborative Research and License Agreement dated January 1, 1999 between Symyx and The Dow Chemical Company
10.11
(2)
 
License Agreement dated June 22, 1995 between Symyx and Lawrence Berkeley Laboratory, on behalf of The Regents of the University of California
**10.12  (33)  
List of Executive Officers Who Participate in Symyx Technologies, Inc.  Executive Change in Control and Severance Benefit Plan
10.13
(3)
 
Lease by and between East Arques Sunnyvale, LLC and Symyx Technologies, Inc. for the premises at 1263 E. Arques, Sunnyvale, California, and addenda and inserts thereto
**10.14
(4)
 
2001 Nonstatutory Stock Option Plan
*10.16
(5)
 
Alliance, Technology Transfer, and License Agreement effective April 1, 2003 between Symyx Technologies, Inc., Symyx Discovery Tools, Inc. and ExxonMobil Research and Engineering Company
*10.17
(8)
 
Alliance Agreement dated December 16, 2004 between Symyx Technologies, Inc., Symyx Discovery Tools, Inc. and The Dow Chemical Company
**10.18
(8)
 
2003 IntelliChem, Inc. Stock Option Plan and forms of agreements thereunder
10.19
(10)
 
Lease by and between Oakmead Ventures LLC and Symyx Technologies, Inc. for the premises at 415 Oakmead Parkway, Sunnyvale, California, and addenda and inserts thereto
**10.20
(16)
 
Form of Restricted Stock Unit Agreement under the Symyx Technologies, Inc. 1997 Stock Plan.
10.21
(13)
 
First Amendment to Lease dated  January 19, 2007 by and between Symyx Technologies, Inc. and East Arques Sunnyvale,  LLC for the premises at 1263 East Arques Avenue, Sunnyvale, California and addenda and inserts thereto
**10.23
(17)
 
Symyx Technologies, Inc. Executive Change in Control and Severance Benefit Plan
**10.26
(21)
 
Form of Restricted Stock Unit Award under the Symyx Technologies, Inc. 2007 Stock Incentive Plan
**10.27
(21)
 
Form of Director and Executive Officer Indemnification Agreement
10.28
(22)
 
Credit Agreement, dated as of September 28, 2007, by and among Symyx Technologies, Inc. as borrower, Bank of America, N.A. as administrative agent and L/C issuer, and the other lenders from time to time party thereto
**10.29
(23)
 
Form of Stock Option Agreement under the Symyx Technologies, Inc. 2007 Stock Incentive Plan
**10.30
(24)
 
Form of Stock Option Agreement under the Symyx Technologies, Inc. 2001 Nonstatutory Stock Option Plan
**10.31
(25)
 
2007 Stock Incentive Plan, as amended
*10.32
(26)
 
Supplemental Agreement, by and between Symyx Technologies, Inc. and The Dow Chemical Company
**10.34
(27)
 
Fiscal Year 2008/2009 Base Salaries and Target Bonus Payouts for Executive Officers

 
**10.35
(12)
 
Symyx Technologies, Inc.’s Offer Letter to Rex S. Jackson Dated January 30, 2007
**10.36
(12)
 
Symyx Technologies, Inc.’s Offer Letter to Timothy E. Campbell Dated February 6, 2007
**10.37
(12)
 
Symyx Technologies, Inc.’s Offer Letter to Richard Boehner Dated March 13, 2007
**10.38
(14)
 
Consulting and Independent Contractor Services Agreement between Symyx Technologies, Inc. and David Hill
**10.39
(14)
 
Symyx Technologies, Inc. Executive Change in Control and Severance Benefit Plan Confirmation by Dr. W. Henry Weinberg
**10.40
(19)
 
First Amendment to the Consulting and Independent Contractor and Service Agreement and Work Orders between Symyx Technologies, Inc. and David C. Hill
(33)
 
Symyx Technologies, Inc.’s Offer Letter to John Senaldi Dated November 9, 2009
10.42
(28)
 
Amendment to Credit Agreement, dated as of March 12, 2009, among Symyx Technologies, Inc., each lender from time to time party thereto, and Bank of America, N.A. as administrative agent and L/C issuer
10.43
(30)
 
Third amendment to Credit Agreement, dated as of September 25, 2009, between Symyx Technologies, Inc. and Bank of America, N.A. as administrative agent and L/C issuer
**10.44
(29)
 
Symyx Technologies, Inc.’s Offer Letter to Richard Rosenthal Dated December 4, 2007
**10.45
(29)
 
Symyx Technologies, Inc.’s Offer Letter to Trevor Heritage Dated October 1, 2007
**10.46
(29)
 
Symyx Technologies, Inc.’s Offer Letter to Charley Haley Dated August 12, 2008
**10.47  (15)  
2007 Executive Annual Cash Incentive Plan
*10.48  (32)  
2009 Executive Cash Bonus Awards
(33)
 
List of Subsidiaries
(33)
 
Consent of Independent Registered Public Accounting Firm
24.1
   
Power of Attorney (reference is made to the signature page of this report)
(33)
 
Certification of Chief Executive Officer pursuant to Section 302(a) of the Sarbanes-Oxley Act of 2002.
(33)
 
Certification of Chief Financial Officer pursuant to Section 302(a) of the Sarbanes-Oxley Act of 2002.
(33)
 
Certification pursuant to Section 906 of the Sarbanes-Oxley Act of 2002.
 

*     Confidential treatment has been requested for portions of these exhibits.
**   Management contracts or compensatory plans or arrangements.
#     All schedules and similar attachments to the sales agreement have been omitted. Copies of such schedules and similar attachments will be furnished supplementally to the SEC upon request.
 

 
(1) Incorporated by reference to the same number exhibit filed with Registrant’s Quarterly Report on Form 10-Q for the period ended June 30, 2003 (SEC File No. 0-27765).
(2) Incorporated by reference to the same number exhibit filed with Registrant’s Registration Statement on Form S-1 (File No. 333-87453), as amended.
(3) Incorporated by reference to the same number exhibit filed with Registrant’s Annual Report on Form 10-K for the year ended December 31, 2000 (SEC File No. 0-27765).
(4) Incorporated by reference to exhibit 4.1 filed with Registrant’s Registration Statement on Form S-8 (File No. 333-82166).
(5) Incorporated by reference to the same number exhibit filed with Registrant’s Quarterly Report on Form 10-Q for the period ended September 30, 2003 (SEC File No. 0-27765).
(6) Incorporated by reference to the same number exhibit filed with Registrant’s Annual Report on Form 10-K for the year ended December 31, 2003 (SEC File No. 0-27765).
(7) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K on December 2, 2004 (SEC File No. 0-27765).
(8) Incorporated by reference to the same number exhibit filed with Registrant’s Annual Report on Form 10-K for the year ended December 31, 2004 (SEC File No. 0-27765).
(9) Incorporated by reference to the same number exhibit filed with Registrant’s Quarterly Report on Form 10-Q for the period ended March 31, 2005 (SEC File No. 0-27765).
(10) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K on November 15, 2005 (SEC File No. 0-27765).


(11) Incorporated by reference to the same number exhibit filed with Registrant’s Annual Report on Form 10-K for the year ended December 31, 2005 (SEC File No. 0-27765).
(12) Incorporated by reference to the same number exhibit filed with Registrant’s Quarterly Report on Form 10-Q for the period ended March 31, 2008 (SEC File No. 0-27765).
(13) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K on January 19, 2007 (SEC File No. 0-27765).
(14) Incorporated by reference to the same number exhibit filed with Registrant’s Quarterly Report on Form 10-Q for the period ended June 30, 2008 (SEC File No. 0-27765).
(15) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K on February 14, 2007 (SEC File No. 0-27765).
(16) Incorporated by reference to the same number exhibit filed with the Registrant’s Annual Report on Form 10-K for the year ended December 31, 2006 (SEC File No. 0-27765).
(17) Incorporated by reference to the same number exhibit filed with Registrant’s Quarterly Report on Form 10-Q for the period ended March 31, 2007 (SEC File No. 0-27765).
(18) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K filed on December 1, 2008 (SEC File No. 000-27765).
(19) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K on November 7, 2008 (SEC File No. 0-27765).
(20) Incorporated by reference to Exhibit 10.25 filed with Registrant’s Current Report on Form 8-K on August 15, 2007 (SEC File No. 0-27765).
(21) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K on September 4, 2007 (SEC File No. 0-27765).
(22) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K on October 4, 2007 (SEC File No. 0-27765).
(23) Incorporated by reference to the same number exhibit filed with Registrant’s Current Report on Form 8-K on November 8, 2007 (SEC File No. 0-27765).
(24) Incorporated by reference to Exhibit 10.7 filed with Registrant’s Quarterly Report on Form 10-Q for the period ended September 30, 2007 (SEC File No. 0-27765).
(25) Incorporated by reference to Exhibit 99.1 filed with Registrant’s Registration Statement on Form S-8 filed on August 8, 2008 (SEC File No. 333-152893).
(26) Incorporated by reference to the same number exhibit filed with Registrant’s Annual Report on Form 10-K for the period ended December 31, 2007 (SEC File No. 0-27765).
(27) Incorporated by reference to Item 5.02 of the Registrant’s Current Report on Form 8-K filed on February 24, 2009 (SEC File No. 0-27765).
(28) Incorporated by reference to the same number exhibit filed with Registrant’s Annual Report on Form 10-K for the period ended December 31, 2008 (SEC File No. 0-27765).
(29) Incorporated by reference to the same number exhibit filed with Registrant’s Quarterly Report on Form 10-Q for the period ended March 31, 2009 (SEC File No. 0-27765).
(30) Incorporated by reference to the same number exhibit filed with Registrant’s Quarterly Report on Form 10-Q for the period ended September 30, 2009 (SEC File No. 0-27765).
(31) Incorporated by reference to the like-described exhibit filed with the Registrant’s Registration Statement on Form S-8 (SEC File No. 333-159019).
(32) Incorporated by reference to the information set forth under Item 5.02 of the Registrant’s Current Report on Form 8-K filed on February 22, 2010 (SEC File No. 0-27765), and Item 9B of this Annual Report on Form 10-K.
(33) Filed here within. 
 
 
94