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UNITED STATES
SECURITIES AND EXCHANGE COMMISSION
Washington, DC 20549


FORM 10-Q


(Mark One)

|X|  QUARTERLY REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE
SECURITIES EXCHANGE ACT OF 1934

For the quarterly period ended June 30, 2002

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 0-28494

MILLENNIUM PHARMACEUTICALS, INC.
(Exact name of registrant as specified in its charter)

Delaware   04-3177038
(State or other jurisdiction
of incorporation or organization)
  (I.R.S. Employer
Identification No.)

75 Sidney Street, Cambridge, Massachusetts 02139
(Address of principal executive offices) (zip code)

(617)  679-7000
(Registrant's telephone number, including area code)


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. Yes |X| No |_|

The total number of shares of the registrant's Common Stock, $0.001 par value, outstanding on August 9, 2002, was 284,432,421.


MILLENNIUM PHARMACEUTICALS, INC.

FORM 10-Q

FOR THE QUARTER ENDED JUNE 30, 2002

TABLE OF CONTENTS

    Page
 
   
 
PART I FINANCIAL INFORMATION    
       
Item 1. Condensed Consolidated Financial Statements    
       
  Condensed Consolidated Balance Sheets as of
June 30, 2002 and December 31, 2001
3      
       
  Condensed Consolidated Statements of Operations for the
three and six months ended June 30, 2002 and 2001
4      
       
  Condensed Consolidated Statements of Cash Flows for the
six months ended June 30, 2002 and 2001
5      
       
  Notes to Condensed Consolidated Financial Statements 6      
       
Item 2. Management's Discussion and Analysis of Financial
Condition and Results of Operations
13      
       
  Certifications of Officers 22      
       
  Risk Factors That May Affect Results 22      
       
Item 3. Quantitative and Qualitative Disclosures about Market Risk 32      
       
PART II OTHER INFORMATION    
       
Item 2. Changes in Securities and Use of Proceeds 33      
       
Item 4. Submission of Matters to a Vote of Security Holders 33      
       
Item 6. Exhibits and Reports on Form 8-K 33      
       
  Signatures 34      
       
  Exhibit Index 35      
       

The following trademarks of the Company are used in this Quarterly Report on Form 10-Q:  Diagnomics™, Melastatin®, Millennium®, Millennium Pharmaceuticals™, VELCADE™ (bortezomib) for Injection and INTEGRILIN® (eptifibatide) Injection. CAMPATH® is a registered trademark of ILEX Pharmaceuticals, L.P., TNKase™ and Activase® are trademarks of Genentech, Inc., ReoPro® is a trademark of Eli Lilly and Company and Aggrastat® is a trademark of Merck & Co., Inc. Other trademarks used in this Quarterly Report on Form 10-Q are the property of their respective owners.

2


PART I     FINANCIAL INFORMATION

Item 1.    Condensed Consolidated Financial Statements

Millennium Pharmaceuticals, Inc.
Condensed Consolidated Balance Sheets

  June 30, 2002
  December 31, 2001
 
  (unaudited)      
(in thousands, except per share amounts)    
Assets    
Current assets:                
Cash and cash equivalents     $ 54,841   $ 35,993  
Marketable securities       1,854,053     1,438,875  
Due from strategic alliance partners       45,115     18,360  
Inventory       103,524      
Prepaid expenses and other current assets       60,358     21,389  
     

 

 
Total current assets       2,117,891     1,514,617  
Property and equipment, net       246,112     168,600  
Restricted cash       38,942     47,308  
Other assets       37,407     13,362  
Goodwill, net       1,202,314     138,519  
Intangible assets, net       503,426     25,328  
     

 

 
Total assets     $ 4,146,092   $ 1,907,734  
     

 

 
                 
Liabilities and Stockholders' Equity                
Current liabilities:                
Accounts payable     $ 24,714   $ 25,237  
Accrued expenses       202,754     89,372  
Current portion of deferred revenue       152,505     71,018  
Current portion of capital lease obligations       17,491     17,536  
     

 

 
Total current liabilities       397,464     203,163  
Deferred revenue, net of current portion       9,207     17,902  
Capital lease obligations, net of current portion       29,927     35,107  
Long term debt       683,285     83,325  
         
Commitments and contingencies                
         
Stockholders' equity:                
Preferred Stock, $0.001 par value; 5,000 shares authorized,
none issued
           
Common Stock, $0.001 par value; 500,000 shares authorized:
284,063 shares at June 30, 2002 and 224,290 shares at
December 31, 2001 issued and outstanding
      284     224  
Additional paid-in capital       4,365,649     2,477,334  
Deferred compensation       (3,277 )   (765 )
Notes receivable from officers       (170 )   (315 )
Accumulated other comprehensive income       17,935     34,371  
Accumulated deficit       (1,354,212 )   (942,612 )
     

 

 
Total stockholders' equity       3,026,209     1,568,237  
     

 

 
Total liabilities and stockholders' equity     $ 4,146,092   $ 1,907,734  
     

 

 

See notes to condensed consolidated financial statements.

3


Millennium Pharmaceuticals, Inc.
Condensed Consolidated Statements of Operations
(unaudited)

  Three Months Ended June 30,
  Six Months Ended June 30,
 
  2002
  2001
  2002
  2001
 
(in thousands, except per share amounts)  
                                 
Revenues:                                
    Product revenue     $ 44,927   $       $ 67,069   $  
    Revenue under strategic alliances       46,927     59,066         93,384     109,430  
     

 

     

 

 
        Total revenues       91,854     59,066         160,453     109,430  
     

 

     

 

 
Costs and expenses:                                
    Research and development       122,430     94,583         223,742     187,104  
    Selling, general and administrative       40,059     19,397         77,300     35,633  
    Cost of product revenue       17,794             25,522      
    Acquired in-process research and development                   242,000      
    Amortization of intangibles       9,754     16,029         15,297     32,296  
     

 

     

 

 
        Total costs and expenses       190,037     130,009         583,861     255,033  
     

 

     

 

 
Loss from operations       (98,183 )   (70,943 )       (423,408 )   (145,603 )
                                 
Other income (expense):                                
    Investment income       29,605     27,071         60,112     54,541  
    Realized loss on marketable securities       (14,712 )   (580 )       (17,062 )   (591 )
    Interest expense       (10,449 )   (2,317 )       (17,242 )   (4,653 )
    Gain on sale of equity interest in joint venture       40,000             40,000      
    Equity in operations of joint venture           39             (925 )
    Debt financing charge       (54,000 )           (54,000 )    
    Debt conversion expenses                       (2,567 )
     

 

     

 

 
Net loss     $ (107,739 ) $ (46,730 )     $ (411,600 ) $ (99,798 )
     

 

     

 

 
Amounts per common share:                                
Net loss per share, basic and diluted     $ (0.38 ) $ (0.21 )     $ (1.53 ) $ (0.46 )
     

 

     

 

 
Weighted average shares, basic and diluted       282,693     217,779         268,382     216,582  
     

 

     

 

 

See notes to condensed consolidated financial statements.

4


Millennium Pharmaceuticals, Inc.
Condensed Consolidated Statements of Cash Flows
(unaudited)

  Six Months Ended June 30,
 
  2002
  2001
 
(in thousands)    
                 
Cash Flows from Operating activities:                
Net loss     $ (411,600 ) $ (99,798 )
Adjustments to reconcile net loss to cash                
used in operating activities:                
Acquired in-process research and development       242,000      
Depreciation and amortization       38,173     48,792  
(Gain) loss on available-for-sale securities, net       5,061   (4,438 )
Stock compensation expense       4,852     1,991  
Equity in operations of joint venture           925  
Changes in operating assets and liabilities:                
  Due from strategic alliance partners       (13,370 )   (527 )
  Prepaid expenses and other current assets       (33,112 )   (1,866 )
  Restricted cash and other assets       (5,715 )   (582 )
  Accounts payable and accrued expenses       25,924     6,143  
  Deferred revenue       (25,555 )   (18,860 )
     

 

 
Net cash used in operating activities       (173,342 )   (68,220 )
     

 

 
                 
Cash Flows from Investing activities:                
Investments in marketable securities       (690,685 )   (384,869 )
Proceeds from sales and maturities of marketable securities       583,856     329,184  
Investment in joint venture       (505 )   (4,845 )
Purchase of property and equipment and other long term assets       (66,581 )   (21,961 )
Net cash acquired in COR Therapeutics, Inc. acquisition       309,147      
     

 

 
Net cash provided by (used in) investing activities       135,232     (82,491 )
     

 

 
                 
Cash Flows from Financing activities:                
Proceeds from sales of common stock       53,405     100,000  
Net proceeds from employee stock purchases      </