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GenoLogics ProteusLIMS 2.5, US Department of Energy s Joint Genome Institute s Integrated Microbial Genomes (IMG) 1.1, and Columbia University s ErmineJ 2.1, and more

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GenoLogics has released ProteusLIMS 2.5. The new version of the company's proteomics data-management platform allows researchers to configure new workflow processes on the fly and automate data capture. ProteusLIMS, tracks container management, aliquoting, pooling and complete sample genealogy; and allows users to compare gel images, HPLC traces, and spectra data. The company will be demonstrating the software at the American Society of Mass Spectrometry in San Antonio, Texas, June 5-9.


The US Department of Energy's Joint Genome Institute has released Integrated Microbial Genomes (IMG) 1.1, an updated version of its microbial genome data management system, at http://img.jgi.doe.gov/. IMG 1.1 contains 32 new public genomes and 14 new genomes sequenced by JGI, bringing the total number of genomes in IMG to 337. These include 301 bacterial, 25 archaeal, and 11 eukaryotic genomes. The next update is scheduled for Sept. 1.


ErmineJ 2.1, a free software package for analyzing gene expression in the context of the Gene Ontology, is available from Columbia University at http://microarray.genomecenter.columbia.edu/ermineJ/. The software is designed to be used by biologists with little or no informatics background.


The Sanger Institute has released the fifth assembly of the zebrafish genome, Zv5, at ftp://ftp.ensembl.org/pub/assembly/zebrafish/Zv5release. The assembly includes 1,630,306,866 base pairs in 16,214 fragments. A preliminary database of Zv5 is available at http://pre.ensembl.org/Danio_rerio.


Cellomics has released the annual update for its HCi high-content screening software. HCi 2005 is available for all ArrayScan HCS Reader, KineticScan HCS Reader, and vHCS Discovery ToolBox platforms. HCi 2005 includes improvements in visualization and analysis, multi-user support, and improved speed and robustness of data management, the company said.


OpenEye Scientific Software has released FRED 2.1, the latest release of its docking program. New features include the use of multiple scoring functions during pose selection, a more accurate version of the ChemGauss scoring function, customizable scoring functions and flexible consensus scoring methods, expanded documentation, and docking analysis tools for investigating how various parameter settings affect the reproduction of known structures of ligand-receptor complexes.


Nonlinear Dynamics said last week that it will launch its Pro MST protein informatics platform at the Human Proteome Organization congress in Munich, Germany, in August. Pro MST is being developed to store, manage, and mine data generated during 2D gel and mass spectrometry experiments. Nonlinear said that data from its Progenesis and Phoretix systems will be directly imported into the system.

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