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Ingenuity Pathways Analysis 5.0, IPA-Tox, IPA-Biomarker, OmniViz 5, PhenyxOnline, Pathway Tools, BioCyc, Schedule Optimizer

Ingenuity Systems has released Ingenuity Pathways Analysis 5.0, which includes IPA-Tox, a molecular toxicology database that is integrated with IPA. IPA-Tox is designed to assess the toxicity and safety of compounds of interest early in the development process and offers access to findings from the scientific literature, including information associated with cardiovascular toxicity, nephrotoxicity, and hepatotoxicity.
Other new features in IPA 5.0 include IPA-Biomarker, a module for prioritizing biomarker candidates, as well as the ability to upload experimental data from multiple, sources, send interactive networks to colleagues, and create pathway diagrams for publication and presentation. A free trial of IPA is available here.

BioWisdom has released version 5 of the OmniViz data visualization and mining software suite, which it picked up in its acquisition of OmniViz in January [BioInform 02-02-07].
OmniViz 5 can visualize and analyze millions of documents or billions of data points, as well as chemical structures and genome sequences, the company said. The new version includes new natural language processing rules for analyzing text.

Geneva Bioinformatics has released a new software-as-a-service version of its Phenyx mass spectrometry analysis platform called PhenyxOnline. Users can test a free public version of the software here. PhenyxOnline is customized for each client, including the ability to search against proprietary databases. The new software allows labs to subscribe to the software “while removing the peripheral costs such as software integration and updates, database installation and updates,” the company said. 

SRI International has released version 11.0 of Pathway Tools and BioCyc here. Pathway Tools includes two new overview diagrams — Genome Overview and Regulatory Overview, which provide global views of cellular systems. In addition, the Pathway Tools genome browser can now display tracks and also includes a new metabolite tracing tool that enables visual tracing of substrates through the metabolic network of a pathway/genome database. The new release also includes a new query language called BioVelo that was designed for advanced queries to pathway/genome databases. BioVelo replaces the old Pathway Tools advanced query page. 

eXludus Technologies has released Schedule Optimizer, a multi-core optimization software package that the company claims can increase throughput performance on clusters up to eight-fold. SchedOpt will be available during the second quarter of 2007 as a standalone module or as part of the company’s Grid Optimizer suite.
In a comparison test on a 24-core cluster running NCBI-Blast, SchedOpt increased CPU efficiency by 8.76 times, the company said.

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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.