Fred Hutchinson Cancer Research Center Taps GenoLogics for Biorepository Informatics
The Fred Hutchinson Cancer Research Center’s Translational and Outcomes Research group has chosen GenoLogics to help develop the biomedical informatics infrastructure for a new biorepository it is building.
The Canary Foundation, a nonprofit, public charity focused on early-detection tests for solid-tumor cancers, is supporting the purchase of GenoLogics’ software.
Nicole Urban, head of the Translational and Outcomes Research group at the Hutch, said in a statement that the center needed an informatics solution to help realize its “vision for translational research” and to be able to work with clinical and laboratory researchers as well as patients and healthy individuals.
“Given the importance of collecting the clinical information to achieve this vision, we decided to work with a commercial vendor to provide our biomedical informatics solution,” Urban said. “GenoLogics not only has a collaborative approach to developing a solution for us, but our visions around translational research are highly synergistic.”
GenoLogics said its biomedical informatics software suite helps to track observational studies, collect patient data at remote sites, provide biospecimen and clinical annotations management, and assist researchers who are querying clinical information and requesting samples.
The suite contains five integrated parts: BioVault for biospecimen management; BioChronicle for clinical annotations management; BioQuest to enable web access; BioSphere for study management; and BioSource to enable electronic patient questionnaires.
University of Arizona Boosts Capacity with SGI Altix ICE
The University of Arizona’s Information Technology Services has purchased a 1,392-core SGI Altix ICE 8200 to extend its existing Altix 4700 shared memory system.
According to a statement from SGI, the system will help UA researchers study gene expression in maize and the cluster’s water-cooled racks will allow the university to cut air conditioning costs in its data center.
Molecular and cellular biologist Vicki Chandler and her group will be using the SGI Altix ICE system to investigate the regulation of gene expression in maize, identifying gene sequences affecting differential expression and other factors that play a role.
The SGI system will help the university gain computing power but not gain heat, according to Michael Bruck, assistant director of research computing at UA’s Information Technology Services group.
“With the Altix 4700 shared memory system and the new Altix ICE, instead of having 256 processors we're going to have 2,020 processors, and instead of 29 tons of air conditioning we will need only 1.7 tons,” Bruck said in a statement. “We're getting 30 times the processing power and less than one-tenth of the A/C cooling requirement.”
NIH To Use AlmaKnowledgeServer 2 Text-Mining Software for Salivary Proteome Project
Active Motif and Bioalma announced this week that the Center for Information Technology at the National Institutes of Health has licensed AlmaKnowledgeServer 2, a knowledge discovery system based on text mining methodologies developed by Bioalma.
Active Motif, which distributes the software, said that NIH will use AKS2 to support an annotation platform for the Human Salivary Proteome Project.
In its synopsis of the software licensing solicitation, the NIH contracting office said that NIH researchers have developed a wiki-based system to store experimental data and protein annotations for the Human Salivary Proteome Project, which is co-funded by the National Institute of Dental and Craniofacial Research along with CIT. The aim is to compile a complete catalog of proteins in human saliva.
According to the synopsis, the project will use the AKS2 text-mining software to help researchers extract and categorize biomedical concepts from free text and uncover associations between proteins, diseases, chemicals, and drugs, and allow scientists to keep the information up-to-date and secure.
CIT and NIDCR said they have determined that “AKS2 is the only commercially available software” meeting the requirements for the project. Among its distinctive features are “an un-biased automated text-mining technology,” its ability to find associations among biomolecules as well as between biomedical terms and biological actions, and a “unique” collection of visualization and reporting features for displaying literature information derived from text analysis.
Entelos Grants Options for 248K Shares
Entelos said this week that it has granted options for over 248,000 new common shares in the capital of the company.
These options have been granted to staff under the 2006 Stock Plan and vest over a period of four years. The exercise price of these options is set to be the mid-market common share closing price on May 28, the company said.