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Lion Bioscience, Tripos, LGC Releases Microarray Data, UB s Bioinformatics Center, NIEHS to Use Cray XD1, Inpharmatica, Fujitsu, Partek, Institute for Genomic Research


Lion: SRS 8.1 to Support HP 64-bit Platform

Lion Bioscience said last week that it has partnered with Hewlett-Packard to optimize its SRS integration system for HP’s Integrity Linux platform based on 64-bit Intel Itanium 2 processors.

Support for the platform will be available in SRS 8.1, which is expected to launch by the end of February.

Lion said that the partnership came about from a customer survey that it conducted last year, in which it was “clear that the Linux open-source operating system on a 64-bit architecture is the platform of choice for the future.”

Tripos Posts Double-Digit Revenue Growth in Q4, FY 2004

Tripos last week reported double-digit revenue growth for the fourth quarter and full year ended Dec. 31, 2004.

“2004 was a successful turnaround year for Tripos,” said John McAlister, president and CEO, in a statement. “We achieved solid revenue growth along with a return to profitability and strong cash flows from operations.”

For 2004, Tripos posted annual revenues of $64.8 million, a 20-percent increase from the previous year’s revenues of $54.1 million. Revenues for the fourth quarter of 2004 were $17.3 million, a 37-percent increase over $12.6 million in the fourth quarter of 2003.

Net income narrowed for the full fiscal year, to $232,000 for 2004, or $.02 per diluted share, compared to net income of $2.1 million, or $.23 per diluted share, for the full year 2003. For the fourth quarter, however, net income improved to $246,000, or $.03 per basic and diluted share, compared with a net loss of $452,000, or $0.05 per basic share, in the fourth quarter of 2003.

Annual revenue from the company’s discovery informatics products and support grew 4 percent, to $24.6 million in 2004 from $23.7 million in 2003. Discovery informatics services also increased — by 24 percent — from $3.2 million in 2003 to $4 million in 2004.

R&D spending was down for the quarter and the full year. In the fourth quarter of 2004, Tripos spent $1.9 million on R&D, compared to $2.7 million in the year-ago period. For the year, the company spent $9.3 million on R&D, down from $12.9 million in 2003.

As of Dec. 31, Tripos had $4.2 million in cash and cash equivalents.

LGC Releases Microarray Data Set

A European consortium led by UK-based analytical laboratory LGC has publicly released a set of comparative microarray data through the European Bioinformatics Institute’s ArrayExpress database (

The data, generated for the UK-funded ‘Comparability of Gene Expression Measurements on Microarrays’ project, includes information from four commercially available arrays, with between 4,000 and 30,000 human genes probed per array. LGC measured gene expression status on 24 replicate arrays for each manufacturer, comparing a brain sample to a universal reference sample.

The UK’s National Physical Laboratory analyzed and normalized the data, which includes more than eight million rows of microarray data.

UB’s Bioinformatics Center Gets $7.3M in Federal Funding, Swallows Supercomputer Center

The State University of New York will receive $27.4 million in additional funding as part of the 2005 federal budget, of which $7.25 million will go to the Center of Excellence in Bioinformatics at the University of Buffalo, according to news reports last week.

In addition, the University plans to place its Center for Computational Research under the auspices of its Center of Excellence in Bioinformatics, the Buffalo News reported.

In addition to the federal funding, the bioinformatics center has been awarded $2.3 million in state funding for new hardware that will “quadruple” its compute power, according to the report. Meanwhile, the Center for Computational Research faces a 50 percent cut in its operating budget over the next three years.

Currently, the CCR supports projects at about 100 research groups as well as 20 companies and institutions in the region, according to director Russ Miller.

NIEHS to Use Cray XD1 for Protein Modeling

Cray announced last week that the National Institute of Environmental Health Sciences will use a Cray XD1 supercomputer for research in protein-structure analysis and molecular modeling.

According to Cray, the XD1 will reduce the time it takes to model a protein structure from nine months to one to two weeks.

Cray will install the system in the first quarter of 2005 in an NIEHS facility in Research Triangle Park, NC.

Serono Takes License to Admensa

Inpharmatica said last week that Serono has taken a multi-site license to its Admensa Interactive suite of predictive ADME models and compound-prioritization tools.

The deal builds on a collaboration between the firms that began in 2001. In November, Serono agreed to pay Inpharmatica $1.5 million for additional rights to proteins identified using Inpharmatica’s PharmaCarta informatics platform [BioInform 11-22-04].

NeurAxon to Use Fujitsu’s BioMedCache

The BioSciences Group of Fujitsu America said last week that it has licensed its BioMedCache suite of automated docking and molecular modeling software to NeurAxon, a Canadian drug-development company.

The deal includes access to the BioSciences Group’s ActiveSite docking module.

Nestlé to Use Partek Software

Partek said last week that it has licensed its Partek software to the Nestlé Research Center in Lausanne, Switzerland.

The center purchased a site license of the software to do statistical analysis on gene expression data, Partek said.

Trace Archive Reveals Three Unknown Bacterial Species

A bioinformatics team at the Institute for Genomic Research has identified three new species of the bacterium Wolbachia from the genome sequences of Drosophila stored in NCBI’s Trace Archive.

The finding, published in the current issue of Genome Biology [6: R23 (22 February 2005)], “highlights the value of making unanalyzed data from large-scale genome sequencing projects openly available online,” TIGR said in a statement.

The study, led by TIGR’s Steven Salzberg, scanned through the newly sequenced genomes of seven different Drosophila species, using the genome of the bacterium Wolbachia pipientis wMel as a probe. From D. ananassae, they retrieved 32,720 sequences that matched the wMel strain. This yielded a new genome of 1,440,650 bp, which they identified as the new species Wolbachia wAna. Using the same technique, they identified Wolbachia wSim in the genome of D. simulans and Wolbachia wMoj in the genome of D. mojavensis.

Because the Trace Archive includes raw genomic data from sequencing projects, it includes the genomes of endosymbiotic bacteria that live inside the organism and can contaminate the final genomic sequence of the host organism.

According to the TIGR authors, these findings might help shed light on the evolution of bacterial endosymbionts and on the mechanisms these organisms use to alter the cell cycle of the host in order to reproduce.


Filed under

The Scan

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Genetically predicted high blood pressure risk is also associated with increased cardiovascular disease risk, a new JAMA Cardiology study says.

Circulating Tumor DNA Linked to Post-Treatment Relapse in Breast Cancer

Post-treatment detection of circulating tumor DNA may identify breast cancer patients who are more likely to relapse, a new JCO Precision Oncology study finds.

Genetics Influence Level of Depression Tied to Trauma Exposure, Study Finds

Researchers examine the interplay of trauma, genetics, and major depressive disorder in JAMA Psychiatry.

UCLA Team Reports Cost-Effective Liquid Biopsy Approach for Cancer Detection

The researchers report in Nature Communications that their liquid biopsy approach has high specificity in detecting all- and early-stage cancers.