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Accelrys, Georgia Tech, Biodesign, TGen, Aureus Pharma, Rosetta Biosoftware, Compugen, Partek, Locus Pharmaceuticals, Insilicos, GenoLogics

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Accelrys Delays Q3 Earnings, Expects Non-Compliance Letter from Nasdaq

Accelrys said this week that it will not file its fiscal third-quarter earnings report on time due to its ongoing discussions with the US Securities and Exchange Commission regarding accounting practices for certain contracts recorded after January 2004.

As a result, Accelrys said it expects to receive a letter from the Nasdaq exchange saying that it is not in compliance with filing requirements.

The company said that after it receives the letter, it "expects to request an extension of time to remain listed while becoming current in its SEC filings."

Accelrys disclosed in December 2005 that an audit committee recommended that it restate its financial statements for each quarter from Jan. 1, 2000, to Sept. 30, 2005. [BioInform 12-26-05].

Accelrys changed its accounting model in January 2004 to recognize revenue over the length of a subscription rather than in the quarter in which the software was shipped.

Accelrys said it can not identify the date when its restatement and required SEC reports will be completed. The company said that it will not resume issuing quarterly earnings announcements until the restatement process is completed.


Georgia Tech Creates Systems Bio Center, Installs IBM BladeCenter Cluster

IBM and the Georgia Institute of Technology said last week that it has created a new Center for the Study of Systems Biology that will use a 1,000-node, 8.5-Tflop Cluster 1350 system built on IBM's BladeCenter systems.

The new center is funded by $8.5 million in grants from the State of Georgia, the Georgia Research Alliance, and the National Institutes of Health. Jeffrey Skolnick, who left his previous position as director of the Buffalo Center of Excellence in Bioinformatics at SUNY-Buffalo to join Georgia Tech in December [BioInform 12-19-05], will lead the center.

BellSouth will host the cluster at its facilities in Atlanta.

The computer is capable of a peak performance of more than 16 teraflops, and includes 1,000 AMD Opteron processor-based nodes for a total of 4,000 core processors. It runs Red Hat Linux 4 on the infrastructure nodes and Scientific Linux on the compute nodes.

The center will also use 28 terabytes of IBM DS4800 storage and 20 terabytes of IBM DS4100 storage, along with the IBM Rear Door Heat eXchanger, which uses the existing chilled water supply for air conditioning systems already located the datacenter to reduce server heat emissions.


Biodesign, TGen Create Computational Biology Center

Arizona State University's Biodesign Institute and the Translational Genomics Research Institute are collaborating to create the Center for Systems and Computational Biology, the organizations said this week.

George Poste, director of the Biodesign Institute, and Jeffrey Trent, president and scientific director of TGen, will oversee the center.

The center will use ASU/TGen's 1,048-processor, 1.75-teraflop supercomputer, dubbed "Saguaro," which was ranked No. 435 in the most recent version of the Top500 list of the world's fastest supercomputers [BioInform 11-21-05].

The organizations said in a statement that they expect the center to "open a channel for additional research, funding, and economic opportunities for collaboration with industry and other institutions to commercialize platform technologies, license intellectual property, and create spin-off companies."

ASU and TGen are currently seeking "a world-class scientist" to direct the center. A Biodesign spokesman told BioInform that the center will be one of 14 centers in different disciplinary areas at the Biodesign Institute, and that these centers typically employ between 20 and 30 faculty members.


GSK Takes Global License to Aureus Pharma's Databases

Aureus Pharma said this week that GlaxoSmithKline has signed a multi-year license for its AurScope databases, including its GPCR, ion channel, hERG, and ADME/drug-drug interaction resources.

GSK has also licensed the company's new AurScope Kinase product, making it the first customer for the database.

Financial details were not disclosed.


Lakeland to Use Rosetta Resolver for Clinical Cancer Research

Lakeland Regional Cancer Center has licensed the Rosetta Resolver software system to investigate the clinical value of microarrays for assisting in cancer staging, Rosetta Biosoftware said this week.

The Florida-based center will use the technology for investigating the clinical value of oligonucleotide microarrays, according to a statement.

No further details were released.


Compugen, Wrapping Up 'Evolution' from Bioinformatics Model, Reports Zero Q4 Revenues

Compugen this week reported no revenues for the fourth quarter of 2005 accompanied by an 8-percent decrease in net losses for the quarter.

"During 2005 we completed our evolution from a company providing life science software products and services on a fee basis, to a company that discovers and licenses potential therapeutic and diagnostic products to leading partners under milestone and revenue sharing agreements," Alex Kotzer, Compugen's president and CEO, said in a statement.

The company's net loss for the period was $3.4 million (including a non-cash charge of $78,000 for amortization of deferred compensation), or $0.12 per share, compared with a net loss of $3.7 million (including a non-cash charge of $155,000 for amortization of deferred compensation), or $0.14 per share, for the corresponding quarter in 2004.

Compugen said R&D spending for the quarter slid to $2.3 million from $3.1 million a year ago.

The company had $30.1 million in cash, cash equivalents, and marketable securities as of Dec. 31.


Millennium Science to Distribute Partek Software in Australia

Millennium Science will sell and market Partek software in Australia and New Zealand, Millennium said this week.

The products include Partek Genomics Suite, Partek Discovery Suite, Partek QSAR Solution, and Partek Screeners Solution.

Millennium Science, based in Surrey Hills, Australia, is a distribution company established in 1999 to supply the Australasian life science research market.


Erasmus and Windber to Co-develop Data Warehouse for Translational Medicine

Erasmus University Medical Center and the Windber Research Institute will develop a translational medicine data warehousing product for clinical, imaging, and proteomic and genomic data, WRI said this week.

The combined warehouse will run on Oracle and InforSense technologies, WRI said in a statement.

WRI has a databank housing more than 19,000 breast disease samples, with more than 500 data fields collected on each patient, as part of an existing relationship with Walter Reed's clinical breast care program.

Erasmus, based in Rotterdam, the Netherlands, uses Affymetrix microarrays in many disease research areas, including pediatric and geriatric studies.


Locus Extends Antifungal Collaboration with Dow AgroSciences

Locus Pharmaceuticals said this week that it is continuing a collaboration with Dow AgroSciences, a subsidiary of The Dow Chemical Company, under which it is applying its computational technologies to design and develop novel small molecules to treat fungal targets.

Financial and other terms of the agreement were not disclosed, but Locus said it stands to realize "certain milestones and royalties" and will have an exclusive option to human therapeutic applications if the collaboration is successful.

The companies began the collaboration just over a year ago. The second stage of the project involves the optimization of chemical designs that Locus identified in the first stage.

Jeffrey Wiseman, vice president of technology and informatics at Locus, said in a statement that the project "has been technically challenging since we have needed to compute binding to a protein with more than 1,400 residues, which may well be the largest protein surface ever comprehensively sampled for drug binding calculations."


University of Missouri Bioinformatics Consortium Purchases SGI HPC System

The Bioinformatics Consortium at the University of Missouri has purchased a high-performance computing platform from Silicon Graphics, SGI said this week.

The consortium purchased a 64-processor Altix 3700 Bx2 server with 128 GB of RAM and an SGI InfiniteStorage storage area network with 8 TB of capacity.

The SGI systems were installed in November and went live in mid-December.

Research projects that will run on the system include structural studies of bipolymers, chemistry in interstellar space, and polar order in crystalline organic molecular materials. The primary applications the SGI Altix system will run are Gaussian, Amber 8, and NAMD.

Gordon Springer, scientific director of the Bioinformatics Consortium, said in a statement that "jobs that were taking about 50 to 60 hours on the HP Alpha SC system actually took about 2 to 6 hours on a similarly configured SGI Altix."


Wash Tech Center Awards $43K Grant to Insilicos for Software Development

Seattle-based proteomics software startup Insilicos said this week that the Washington Technology Center has awarded it a $43,396 Research and Technology Development grant to further development of its proteomics software tools, which are "aimed at detecting cardiovascular disease."

Insilicos was one of eight Washington state companies to receive an RTD grant, which are awarded to companies in order to commercialize new technologies.

Insilicos said it is developing software to more accurately analyze data obtained from analysis of plasma. The company is partnering with Tomas Vaisar at the University of Washington to develop a diagnostic test based on its software.

The grant will support testing of the new tool in a clinical setting.


Orion Integrated Biosciences and VBI to Integrate PathPort, ICAS

The Virginia Bioinformatics Institute at Virginia Tech and Orion Integrated Biosciences have signed an agreement to integrate information on encephalic and hemorrhagic viruses from VBI's PathPort database into Orion's Integrated Computational Analysis System, a computational tool that allows users to store, retrieve and exchange molecular and diagnostic data on viral pathogens.

Orion will use VBI's Pathogen Information Markup Language to add the data to ICAS.


Scripps Florida to Use GenoLogics Software

GenoLogics Life Sciences Software said this week that Scripps Florida, a division of the Scripps Research Institute, will use GenoLogics' scientific data management system for its proteomics and systems biology research.

Nick Tsinoremas, senior director and head of informatics at Scripps Florida, said in a statement that the institute was "looking for a means to acquire data in context and have one central place to uniformly access the data and not have to develop integration points between everything. We also want a system that can cross over with other discipline areas, such as genotyping, microarray and gene expression." [For more on Tsinoremas' plans for the Scripps informatics group, see BioInform 01-27-06].

Financial terms of the agreement were not disclosed.


Precision Biomarker to Use Stone Bond EE-LIMS for Affy GeneChip Data

Stone Bond Technologies said this week that Precision Biomarker Resources has purchased its Enterprise Enabler Laboratory Information Management System for order tracking and data management.

Precision Biomarker is using the system to support its Affymetrix GeneChip processing and data analysis services.

Financial terms were not provided.

Filed under

The Scan

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