Exhibit 99.1

Brooks Automation Reports Fiscal Fourth Quarter
and Full Year Ended September 30, 2011 Results

Achieves Record Cash from Operating Activities of $87.6 Million for Full
Year

Declares Quarterly Cash Dividend of $0.08 per Share

CHELMSFORD, Mass., November 10, 2011 Brooks Automation, Inc. (Nasdaq:BRKS), a leading worldwide provider of automation, vacuum and instrumentation solutions for multiple markets including semiconductor manufacturing, life sciences, and clean energy, today reported preliminary financial results for the fourth quarter and full year ended September 30, 2011.

Fiscal Full Year of 2011 Financial and Operational Highlights:

	•		Grew Revenue to $688.1 Million an Increase of 16% from Last Year
	•		Achieved Record Cash Flow from Operating Activities of $87.6 Million
	•		Cash, Cash Equivalents and Marketable Securities as of September 30th were $205.8 million, or $3.17 per diluted share with no Debt
	•		GAAP Diluted earnings per share were $1.97 for the full year
	•		Adjusted EBITDA Increased 48% to $111.2 Million
	•		Sold Lower Margin Contract Manufacturing Business
	•		Successfully Diversified Business with Creation of Higher Margin Life Science Systems Platform
	•		Generated 79 Design-in-Wins with OEM Customers Forging Continued Market Share Gains

Management Comments

“Even though our performance was negatively impacted by the challenging economy, we are pleased with our overall financial and operational performance during the fourth quarter and full year as we continued to make improvements in many controllable aspects of our business,” stated Steve Schwartz, President & Chief Executive Officer of Brooks. “Our fourth quarter Life Sciences revenue was slightly ahead of our expectations and our integration activities are well underway although cost reductions and margins on some orders were less than we had projected. Industry weakness for LED tools accelerated as the quarter progressed and our semiconductor business was at the bottom end of our expectations as orders and deliveries continue to be pushed out. However, we believe we are well positioned for growth in this area of our business in calendar 2012.

Dr. Schwartz continued, “In fiscal 2011 we achieved our goal of entering the higher margin life science businesses and exiting our contract manufacturing business while also generating record cash from operating activities of $87.6 million. We are pleased with the initial results and implementation of our strategic plan to expand our business in the life sciences area with the formation of Brooks Life Science Systems. With our recent acquisition of Nexus Biosystems, we have created a strong platform in automated sample management that we expect to be the core of a higher margin, more profitable, long-term growth business for us. In fiscal 2012, we will continue to prudently focus on strategic acquisitions, completing the integration and restructuring of the Brooks Life Science Systems business, retaining our high design-in win rate and executing on meaningful operational improvement plans.

Martin Headley, Executive Vice President and Chief Financial Officer, commented, “With our strong operating cash flow, over $200 million of cash and marketable securities and no debt, we believe we are well positioned to leverage our leading platform in automation, vacuum and instrumentation solutions by expanding our core competencies and entering into adjacent markets such as life sciences. We believe this strategic direction will result in improved gross and operating margins in the future and enhance long-term shareholder value.”

Fiscal Fourth Quarter 2011 Results

Revenues for the fourth quarter of fiscal 2011 were $131 million, compared to revenues of $181.6 million in the fourth quarter of fiscal 2010, which included $48.0 million from the contract manufacturing business that was sold at the end of the third quarter of 2011. Revenues for the Brooks Global Services segment increased sequentially 6.1% from the third quarter of fiscal 2011, while revenues for the Brooks Product Solutions segment declined 17.3% sequentially with industry weakness.

Order bookings for the fourth quarter of fiscal 2011 were $110.3 million, compared to order bookings in the fiscal third quarter of $190.8 million, which included $44.2 million related to contract manufacturing.

Gross profit margin increased to 35.9% or $47.1 million for the fourth quarter of 2011, compared to gross profit margin of 30.4% or $55.2 million for the fourth quarter of 2010. The fourth quarter fiscal 2011 margins were adversely impacted by a number of acquisition and integration related expenses related to Brooks Life Science Systems.

Net income for the fourth quarter of fiscal 2011 amounted to $12.1 million, or $0.19 per diluted share which includes $479 thousand of restructuring charges, $2.3 million of acquisition related adjustments and $2.7 million of one-time tax benefits. Adjusted net income, a non-GAAP measure, was also $12.1 million, or $0.19 per diluted share and compares to $24.4 million or $0.38 per diluted share in the fourth quarter of fiscal 2010. This and other special charges and benefits and their impact on comparative results are identified in the unaudited table included with this release.

Adjusted EBITDA (Earnings before Interest, Tax, Depreciation and Amortization) for the fourth quarter of fiscal 2011 was $17.7 million, which compared to $29.5 million in the third quarter of fiscal 2011 and $29.7 million in the fourth quarter of fiscal 2010. A reconciliation of non-GAAP measures to the most nearly comparable GAAP measure follows the consolidated statements of operations, balance sheets and statements of cash flows included in this release. Adjusted EBITDA (Earnings before Interest, Tax, Deprecation and Amortization) for the fiscal full year ended September 30, 2011 was $111.2 million which compared to $75.1 million for the fiscal full year ended September 30, 2010.

Net cash provided by operating activities for the fourth quarter of fiscal 2011 was $20.4 million. For the fiscal full year ended September 30, 2011 cash from operating activities was $87.6 million, and the increase in total cash and marketable securities was $63.4 million which resulted in an increase of total cash and marketable securities to $205.8 million at September 30, 2011.

Fiscal Full Year 2011 Results

Revenues for the fiscal full year ended September 30, 2011 were $688.1 million, a 16.0% increase over revenues of $593.0 million for the fiscal full year ended September 30, 2010. Net income attributable to Brooks for the full year ended September 30, 2011 was $128.4 million or $1.97 per diluted share, which compared to $59.0 million or $0.92 per diluted share for the fiscal full year ended September 30, 2010. Excluding the impact of special charges and non-recurring income, net income increased to $86.0 million or $1.32 per diluted share for the fiscal full year ended September 30, 2011, which compared to $50.1 million or $0.78 per diluted share, for the fiscal full year ended September 30, 2010.

Quarterly Cash Dividend

The Company additionally announced that the Board of Directors had declared a dividend of $0.08 per share payable on December 30, 2011 to stock holders of record on December 9, 2011. Future dividend declarations, as well as the record and payment dates for such dividends, are subject to the final determination of the Company’s Board of Directors.

Conference Call

Brooks management will webcast its fourth quarter earnings conference today at 4:30 p.m. Eastern Time to discuss the fiscal fourth quarter and year-end results and business highlights. During the call, Company management will respond to questions concerning, but not limited to, the Company’s financial performance, business conditions and industry outlook. Their responses could contain information that has not been previously disclosed.

The call will be broadcast live over the Internet hosted at the Investor Relations section of Brook’s website at www.brooks.com, and will be archived online on this website for convenient on-demand replay. In addition, you may call (888) 419-5570 (US only) or (617) 896-9871 to listen to the live broadcast. The passcode for this telephone access is 90929467.

Contact Info:

John Mills
Senior Managing Director
ICR, LLC
310-954-1105
john.mills@icrinc.com

Barbara Culhane
Brooks Automation, Inc.
Corporate Marketing Manager
978-262-2400
barbara.culhane@brooks.com

About Brooks Automation, Inc.

Brooks is a leading worldwide provider of automation, vacuum and instrumentation solutions for multiple markets including semiconductor manufacturing, life sciences, and clean energy. Our technologies, engineering competencies and global service capabilities provide customers speed to market, and ensure high uptime and rapid response, which equate to superior value in their mission-critical controlled environments. Since 1978, we have been a leading partner to the global semiconductor manufacturing market and through product development initiatives and strategic business acquisitions; we have expanded our reach to meet the needs of customers in the life sciences industry, analytical & research markets, and clean energy solutions. Brooks is headquartered in Chelmsford, MA, with direct operations in North America, Europe and Asia. For more information, please visit www.brooks.com.

“Safe Harbor Statement” under Section 21E of the Securities Exchange Act of 1934 Some statements in this release are forward-looking statements made under Section 21E of the Securities Exchange Act of 1934. These statements are neither promises nor guarantees but involve risks and uncertainties, both known and unknown, that could cause Brooks’ financial and business results to differ materially from our expectations. They are based on the facts known to management at the time they are made. These forward-looking statements include statements regarding our revenue and operating margin expectations, our ability to develop further our business in new and adjacent markets, and our ability to achieve financial success in the future. Factors that could cause results to differ from our expectations include the following: volatility of the industries the Company serves, particularly the semiconductor industry; our possible inability to meet demand for our products due to difficulties in obtaining components and materials from our suppliers — particularly those manufacturing in Thailand — in required quantities and of required quality; the inability of customers to make payments to us when due; the timing and effectiveness of cost reduction and cost control measures; price competition; disputes concerning intellectual property; continuing uncertainties in global political and economic conditions, and other factors and other risks that we have described in our filings with the Securities and Exchange Commission, including but not limited to our Annual Report on Form 10-K, current reports on Form 8-K and our quarterly reports on Form 10-Q. As a result we can provide no assurance that our future results will not be materially different from those projected. Brooks expressly disclaims any obligation or undertaking to release publicly any updates or revisions to any such statement to reflect any change in our expectations or any change in events, conditions or circumstances on which any such statement is based. Brooks undertakes no obligation to update the information contained in this press release.

BROOKS AUTOMATION, INC.
CONSOLIDATED BALANCE SHEETS
(In thousands, except share and per share data)
(unaudited)

		September 30,				September 30,
		2011				2010
ASSETS
Current assets
Cash and cash equivalents		$	58,833			$	59,823
Restricted cash			1,293				—
Marketable securities			65,695				49,011
Accounts receivable, net			76,701				92,273
Inventories, net			107,654				115,787
Prepaid expenses and other current assets			10,348				10,437
Total current assets			320,524				327,331
Property, plant and equipment, net			68,596				63,669
Long-term marketable securities			81,290				33,593
Goodwill			84,727				48,138
Intangible assets, net			44,314				11,123
Equity investment in joint ventures			34,612				31,746
Other assets			2,557				2,624
Total assets		$	636,620			$	518,224
LIABILITIES AND EQUITY
Current liabilities
Accounts payable		$	40,199			$	65,734
Deferred revenue			14,073				4,365
Accrued warranty and retrofit costs			7,438				8,195
Accrued compensation and benefits			17,288				13,677
Accrued restructuring costs			293				3,509
Accrued income taxes payable			4,015				1,040
Accrued expenses and other current liabilities			12,433				11,635
Total current liabilities			95,739				108,155
Income taxes payable			11,728				12,446
Long-term pension liability			7,161				5,466
Other long-term liabilities			3,394				2,805
Total liabilities			118,022				128,872
Commitments and contingencies
Equity
Preferred stock, $0.01 par value, 1,000,000 shares authorized, no shares issued and outstanding at September 30, 2011 and 2010			—				—
Common stock, $0.01 par value, 125,000,000 shares authorized, 79,737,189 shares issued and 66,275,320 shares outstanding at September 30, 2011, 78,869,331 shares issued and 65,407,462 shares outstanding at September 30, 2010			797				789
Additional paid-in capital			1,809,287				1,803,121
Accumulated other comprehensive income			19,480				19,510
Treasury stock at cost, 13,461,869 shares at September 30, 2011 and 2010			(200,956	)			(200,956	)
Accumulated deficit			(1,110,599	)			(1,233,649	)
Total Brooks Automation, Inc. stockholders’ equity			518,009				388,815
Noncontrolling interest in subsidiaries			589				537
Total equity			518,598				389,352
Total liabilities and equity		$	636,620			$	518,224

BROOKS AUTOMATION, INC.

CONSOLIDATED STATEMENTS OF OPERATIONS
FOR THE THREE AND TWELVE MONTHS ENDED SEPTEMBER 30, 2011 AND 2010
(In thousands, except per share data)
(unaudited)

		Three months ended								Twelve months ended
		September 30,								September 30,
		2011				2010				2011				2010
Revenues
Product		$	108,334			$	165,340			$	611,117			$	531,807
Services			22,617				16,292				76,988				61,165
Total revenues			130,951				181,632				688,105				592,972
Cost of revenues
Product			68,677				113,909				411,610				377,466
Services			15,216				12,529				53,474				49,211
Total cost of revenues			83,893				126,438				465,084				426,677
Gross profit			47,058				55,194				223,021				166,295
Operating expenses
Research and development			11,481				8,043				39,846				31,162
Selling, general and administrative			28,143				24,576				102,542				85,597
Restructuring charges			479				235				1,036				2,529
Total operating expenses			40,103				32,854				143,424				119,288
Operating income			6,955				22,340				79,597				47,007
Interest income			267				307				1,153				1,121
Interest expense			(26	)			(46	)			(65	)			(80	)
Sale of intellectual property rights			—				—				—				7,840
Sale of contract manufacturing business			—				—				45,009				—
Loss on investment			—				—				—				(191	)
Other income, net			397				662				1,882				367
Income from operations before income taxes and equity in earnings of joint ventures			7,593				23,263				127,576				56,064
Income tax provision (benefit)			(3,369	)			(527	)			1,954				(2,746	)
Income from operations before equity in earnings of joint ventures			10,962				23,790				125,622				58,810
Equity in earnings of joint ventures			1,164				518				2,782				215
Net income			12,126				24,308				128,404				59,025
Add: Net income attributable to noncontrolling interests			(28	)			(132	)			(52	)			(43	)
Net income attributable to Brooks Automation, Inc.		$	12,098			$	24,176			$	128,352			$	58,982
Basic net income per share attributable to Brooks Automation, Inc. common stockholders		$	0.19			$	0.38			$	1.99			$	0.92
Diluted net income per share attributable to Brooks Automation, Inc. common stockholders		$	0.19			$	0.38			$	1.97			$	0.92
Shares used in computing income per share
Basic			64,750				64,068				64,549				63,777
Diluted			65,118				64,330				65,003				64,174

BROOKS AUTOMATION, INC.

CONSOLIDATED STATEMENTS OF CASH FLOWS
(In thousands)
(unaudited)

		Year Ended September 30,
		2011				2010
Cash flows from operating activities
Net income		$	128,404			$	59,025
Adjustments to reconcile net income to net cash provided by operating activities:
Depreciation and amortization			17,249				18,420
Sale of intellectual property rights			—				(7,840	)
Stock-based compensation			6,752				6,567
Amortization of premium on marketable securities			2,283				942
Undistributed earnings of joint ventures			(383	)			(215	)
Sale of contract manufacturing business			(45,009	)			—
Loss on disposal of long-lived assets			10				4
Loss on investment			—				191
Changes in operating assets and liabilities, net of acquisitions and disposals:
Accounts receivable			9,916				(53,163	)
Inventories			(19,131	)			(31,341	)
Prepaid expenses and other current assets			1,806				(499	)
Accounts payable			(15,099	)			39,352
Deferred revenue			1,841				1,487
Accrued warranty and retrofit costs			(1,420	)			2,483
Accrued compensation and benefits			2,036				(913	)
Accrued restructuring costs			(3,212	)			(4,123	)
Accrued expenses and other current liabilities			1,607				(2,505	)
Net cash provided by operating activities			87,650				27,872
Cash flows from investing activities
Purchases of property, plant and equipment			(6,455	)			(3,472	)
Purchases of marketable securities			(186,718	)			(117,473	)
Sale/maturity of marketable securities			120,095				84,546
Increase in restricted cash			(1,293	)			—
Proceeds from the sale of the contract manufacturing business			78,249				—
Acquisitions, net of cash acquired			(88,309	)			—
Proceeds from the sale of intellectual property rights			—				7,840
Purchase of intangible assets			—				(892	)
Other			181				243
Net cash used in investing activities			(84,250	)			(29,208	)
Cash flows from financing activities
Issuance of common stock under stock option and stock purchase plans			1,358				1,245
Common stock dividend paid			(5,180	)			—
Net cash provided by (used in) financing activities			(3,822	)			1,245
Effects of exchange rate changes on cash and cash equivalents			(568	)			(71	)
Net decrease in cash and cash equivalents			(990	)			(162	)
Cash and cash equivalents, beginning of year			59,823				59,985
Cash and cash equivalents, end of year		$	58,833			$	59,823

Notes on Non-GAAP Financial Measures:

The information in this press release is for: internal managerial purposes; when publicly providing guidance on future results; and as a means to evaluate period-to-period comparisons. These financial measures are used in addition to and in conjunction with results presented in accordance with GAAP and should not be relied upon to the exclusion of GAAP financial measures. Management believes these financial measures provide an additional way of viewing aspects of our operations, that, when viewed with our GAAP results and the accompanying reconciliations to the corresponding GAAP financial measures, provide a more complete understanding of our business. Management strongly encourages investors to review our financial statements and publicly-filed reports in their entirety and not rely on any single measure.

The press release includes financial measures which exclude the effects of non-recurring income and special charges such as restructuring charges and gains or losses on investments. Management believes these measures are useful to investors because it eliminates accounting charges that do not reflect Brooks’ day-to-day operations. A table reconciling income and diluted earnings per share from operations is presented below:

		Quarter ended
		September 30, 2011								June 30, 2011								September 30, 2010
		$				per share				$				per share				$				per share
Net income attributable to Brooks Automation, Inc.		$	12,098			$	0.19			$	66,183			$	1.02			$	24,176			$	0.38
Purchase accounting impact on contracts acquired			957				0.01				313				0.00				—				—
Restructuring charges			479				0.01				97				0.00				235				0.00
Gain on sale of contract manufacturing, net of tax			—				—				(42,588	)			(0.65	)			—				—
Merger costs			719				0.01				—				—				—				—
Inventory charges recorded for acquistions			625				0.01				—				—				—				—
Litigation settlement			—				—				(664	)			(0.01	)			—				—
One-time tax benefit			(2,758	)			(0.04	)			—				—				—				—
Adjusted net income attributable to Brooks Automation, Inc.			12,120				0.19				23,341				0.36				24,411				0.38
Stock-based compensation			1,541				0.02				1,595				0.02				1,678				0.03
Adjusted net income attributable to Brooks Automation, Inc. — excluding stock-based compensation		$	13,661			$	0.21			$	24,936			$	0.38			$	26,089			$	0.41

		Year ended
		September 30, 2011								September 30, 2010
		$				per share				$				per share
Net income attributable to Brooks Automation, Inc.		$	128,352			$	1.97			$	58,982			$	0.92
Purchase accounting impact on contracts acquired			1,270				0.02				—				—
Restructuring charges			1,036				0.02				2,529				0.04
Gain on sale of contract manufacturing, net of tax			(42,588	)			(0.66	)			—				—
Merger costs			719				0.01				—				—
Inventory charges recorded for acquisitions			625				0.01				—				—
Litigation settlement			(664	)			(0.01	)			—				—
Sale of intellectual property rights, net of tax			—				—				(7,730	)			(0.12	)
Loss on investment			—				—				191				0.00
One-time income tax benefit			(2,758	)			(0.04	)			(3,899	)			(0.06	)
Adjusted net income attributable to Brooks Automation, Inc.			85,992				1.32				50,073				0.78
Stock-based compensation			6,752				0.10				6,567				0.10
Adjusted net income attributable to Brooks Automation, Inc. — excluding stock-based compensation		$	92,744			$	1.43			$	56,640			$	0.88

		Quarter ended												Year ended
		Sep 30,				June 30,				Sep 30,				Sep 30,				Sep 30,
		2011				2011				2010				2011				2010
Net income attributable to Brooks Automation, Inc.		$	12,098			$	66,183			$	24,176				128,352				58,982
Less: Interest income			(267	)			(350	)			(307	)			(1,153	)			(1,121	)
Add: Interest expense			26				10				46				65				80
Add: Income tax provision (benefit)			(3,369	)			3,300				(527	)			1,954				(2,746	)
Add: Depreciation			3,177				2,990				3,419				12,621				14,563
Add: Amortization of completed technology			718				539				479				2,216				1,887
Add: Amortization of acquired intangible assets			1,018				495				493				2,412				1,970
Add: Stock-based compensation			1,541				1,595				1,678				6,752				6,567
Add: Restructuring charges			479				97				235				1,036				2,529
Add: Loss on investment			—				—				—				—				191
Add: Purchase accounting impact on contracts acquired			957				313				—				1,270				—
Add: Merger costs			719				—				—				719				—
Add: Inventory charges recorded for acquisitions			625				—				—				625				—
Less: Gain on sale of contract manufacturing, pre-tax			—				(45,009	)			—				(45,009	)			—
Less: Litigation settlement			—				(664	)			—				(664	)			—
Less: Sale of intellectual property rights, pre-tax			—				—				—				—				(7,840	)
Adjusted EBITDA		$	17,722			$	29,499			$	29,692			$	111,196			$	75,062