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ToxShield Suite 1.0, HapMap 15, SCOP 1.67, EMBOSS 2.10.0, BIND 3.7, GenBank 146.0, UCSC Genome Browser, BioBrew 3.1, BioMart version 0.2, CE-MC 1.1


Gene Logic has launched ToxShield Suite 1.0, a web-based software platform for rank-ordering candidate drug compounds based on potential toxicities in humans. The software is based on predictive toxicogenomics studies that Gene Logic has performed for pharmaceutical clients.

HapMap 15 is now available at Over a million SNPs have now been genotyped in all four HapMap populations.

SCOP (Structural Classification of Proteins) 1.67 is available at It includes 24,037 PDB entries and 65,122 domains.

EMBOSS 2.10.0 has been released at and The release corrects alignment numbering for some alignment formats and offers faster feature-table handling.

The Blueprint Initiative has released version 3.7 of the Biomolecular Interaction Network Database (BIND), at

GenBank 146.0 is now available from the National Center for Biotechnology Information at The release contains 46,849,831,226 base pairs and 42,734,478 entries. Uncompressed, the 144.0 flat files require about 162 GB for the sequence files only. The ASN.1 version requires around 140 GB.

The University of California Santa Cruz Genome Bioinformatics Group has released a Genome Browser and Blat server for the September 2004 Btau_1.0 draft assembly of the cow genome, and a Genome Browser for a second honeybee assembly, Amel_2.0 (UCSC version apiMel2).

BioBrew 3.1, an open source Linux cluster distribution based on the NPACI Rocks cluster software that is enhanced for bioinformaticists and life scientists, is available at The release includes updated versions of HMMer, Gromacs, EMBOSS, NCBI Blast, mpiBlast, Phylip, and mrBayes.

Ensembl has released BioMart version 0.2, which includes improvements designed to facilitate external installations, at

CE-MC 1.1, a software package for multiple protein structure alignment, is available at The standalone version of the software includes new features for generating output files containing transformed coordinates before and after structure alignment.


Filed under

The Scan

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Y Chromosome Study Reveals Details on Timing of Human Settlement in Americas

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