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Bioconductor 1.8, BioLT Literature Mining Tool 2.0, Paul Gilna, Peter Arzberger

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Downloads & Upgrades

Bioconductor 1.8, which includes 35 new packages and other improvements, is available at http://bioconductor.org. New features include BiocViews, a new way to browse the Bioconductor package repositories, and new cdf and probe packages from the Molecular and Behavioral Neuroscience Institute at the University of Michigan.


Biomax Informatics has released BioLT Literature Mining Tool 2.0, a text-mining software package. BioLT combines manually curated biological and medical dictionaries with free-text querying capabilities, the company said. It is available as a customizable in-house product or as a web portal via http://www.biomax.com.


The Department of Pharmaceutical Biosciences at Uppsala University and the Research Group for Molecular Informatics at the Cologne University Bioinformatics Center have released Bioclipse 0.9.0 at http://sourceforge.net/project/showfiles.php?group_id=150681. Bioclipse is a Java-based, open source, visual platform for cheminformatics and bioinformatics based on the Eclipse rich client platform. It is based on a plug-in architecture that "inherits basic functionality and visual interfaces from Eclipse," according to its developers. New features in Bioclipse 0.9.0 include molecular management using CDK, molecular editing in 2D using JChemPaint, molecular visualization in 3D using Jmol, spectra visualization, sequence management and visualization using BioJava, and a CMLRSS newsreader.

 

People in the News

HPC Wire reported last week that Paul Gilna has been appointed executive director of the Community Cyberinfrastructure for Advanced Marine Microbial Ecology Research and Analysis (CAMERA) project, a joint project between the California Institute for Telecommunications and Information Technology, the J. Craig Venter Institute, the University of California, San Diego's Center for Earth Observations and Applications based at the Scripps Institution of Oceanography, and the San Diego Supercomputer Center [BioInform 01-20-06].

Gilna replaces interim director Peter Arzberger, director of Life Science Initiatives at UCSD, HPC Wire reported. Gilna is the former director of the Department of Energy's Joint Genome Institute and group leader of genomic science and computational biology in the bioscience division of Los Alamos National Laboratory. He was previously program director for Computational Biology and Database Activity Programs at the National Science Foundation, and was also co-PI of the GenBank project at Los Alamos before it was managed by the National Center for Biotechnology Information.

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