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Illumina reports financial results for second quarter 2009

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San Diego, California
July 22, 2009

Illumina, Inc. (NASDAQ:ILMN) today announced its financial results for the second quarter of 2009.

For the second quarter of 2009, Illumina reported revenue of $161.6 million, a 15% increase over the $140.2 million reported in the second quarter of 2008. The Company reported net income for the quarter of $24.7 million, or $0.18 per diluted share, compared to $12.7 million, or $0.09 per diluted share in the comparable period of 2008. Net income for the second quarter of 2009 included non-cash charges of $14.9 million in stock compensation expense associated with SFAS No. 123R, $4.8 million in non-cash interest expense associated with the adoption of FSP APB 14-1 and other items listed in the table entitled “Itemized Reconciliation Between GAAP and Non-GAAP Net Income Per Share.” Excluding the impact of these items, and net of pro forma tax expense, Illumina’s net income on a non-GAAP basis for the second quarter of 2009 was $39.4 million, or $0.30 per diluted share, compared to $27.5 million, or $0.22 per diluted share, for the second quarter of 2008.

Gross margin in the second quarter of 2009 was 68.8% compared to 59.2% in the comparable period of 2008. Excluding the effect of non-cash charges associated with stock compensation, the amortization of intangibles, and the impairment of manufacturing equipment in the second quarter of 2008, non-GAAP gross margin was 70.6% for the second quarter of 2009 compared to 65.0% in the prior year period.

Research and development (R&D) expenses for the second quarter of 2009 were $33.1 million compared to $23.5 million in the second quarter of 2008. Second quarter 2009 R&D expenses included $5.0 million of non-cash stock compensation expense and $0.9 million of accrued contingent compensation associated with the Avantome acquisition. The comparable period in 2008 included $3.4 million of non-cash stock compensation expense. Excluding these charges, R&D expenses as a percentage of revenues were 16.8% compared to 14.3% in the prior year period.

Selling, general, and administrative (SG&A) expenses for the quarter were $41.9 million compared to $35.6 million for the second quarter of 2008. SG&A expenses include $8.6 million and $7.4 million of non-cash stock compensation expense in the second quarter of 2009 and 2008, respectively. Excluding these charges, SG&A expenses as a percentage of revenues were 20.6% compared to 20.1% in the prior year period.

The Company generated $39.4 million in cash flow from operations during the second quarter of 2009 compared to $37.2 million in the prior year period. Depreciation and amortization expenses were $7.9 million and capital expenditures were $14.0 million during the quarter. The Company ended the second quarter with $790 million in cash and investments compared to $728 million as of March 29, 2009.

Highlights since our last earnings release:

  • Launched the HumanOmni1-Quad BeadChip, a four sample microarray with over 1 million data points per sample that includes up-to-date content for all major classes of genetic variation, including over 100,000 variants from the 1,000 Genomes Projects. 
  • Launched Multi-Sample Indexing for the GoldenGate assay enabling researchers to screen up to 16 times as many samples per reaction while decreasing total reagent consumption, ideal for screening in the livestock and agriculture market as well as for whole-genome association target validation and quality control applications. 
  • Announced software advancements for the Genome AnalyzerIIx which enable real-time analysis and provide a significant reduction in computing infrastructure requirements. These improvements enable researchers to increase their sequencing output up to 65%.
  • Launched the Personal Genome Sequencing Service offering whole human genome sequencing to consumers with a physician’s prescription for $48,000.
  • Received CLIA certification of Illumina’s services laboratory for high complexity testing.
  • Surpassed 300 scientific publications where the Genome Analyzer has been used for data generation, analysis or novel method development.

Financial Outlook and Guidance

The non-GAAP financial guidance discussed below excludes tax-adjusted non-cash charges resulting from stock compensation expense, the incremental interest expense and gain on debt extinguishment associated with the adoption of FSP APB 14-1 “Accounting for convertible debt instruments that may be settled in cash upon conversion (including partial cash settlement)” on December 29, 2008, acquired research and development, amortization expense related to intangible assets, the accrual of contingent compensation related to the Avantome acquisition, and the double dilution associated with the accounting treatment of the Company’s convertible debt outstanding and the corresponding call option overlay (see table which reconciles these non-GAAP financial measures to the related GAAP measures).

We expect 2009 revenues to fall within the range of $690 to $720 million, representing year-over-year growth between 20% and 26%. We expect our gross margin percentage to be in the upper 60s. We expect non-GAAP earnings per fully diluted pro forma share between $1.13 and $1.23. We expect the full-year pro forma tax rate to be approximately 33% and stock compensation expense of approximately $62 million or a tax-adjusted amount of $0.31 per fully diluted pro forma share. The Company expects full-year weighted-average diluted shares outstanding for the measurement of pro forma amounts to be approximately 133 million.

For the third quarter of 2009, we expect revenues between $162 and $172 million. We expect earnings per fully diluted share of $0.26 to $0.30 assuming approximately 135 million shares. We expect stock compensation expense during the third quarter of approximately $16 million or a tax adjusted amount of $0.08 per fully diluted pro forma share.

Illumina is a leading developer, manufacturer, and marketer of next-generation life science tools and integrated systems for the large scale analysis of genetic variation and biological function. We provide a comprehensive line of proprietary products and services that currently serve the sequencing, genotyping, and gene expression markets, and we expect to enter the market for molecular diagnostics. Our customers include leading genomic research centers, academic institutions, agriculture and livestock companies, pharmaceutical companies, clinical research organizations and biotechnology companies. Our tools provide researchers around the world with the performance, throughput, cost effectiveness and flexibility necessary to perform the billions of genetic tests needed to extract valuable medical information from advances in genomics and proteomics. We believe this information will enable researchers to correlate genetic variation and biological function, which will enhance drug discovery and clinical research, allow diseases to be detected earlier and permit better choices of drugs for individual patients.

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