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GeneSifter.Net, almaZen, RefSeq Release 1, NCBI Blast, Visual OMP, AltExtron, International Protein Index

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VizX Labs has released GeneSifter.Net version 2003.3 at http://www.genesifter.net/. New features include links to metabolic pathways diagrams and an Ontology Overview Report.

 

Alma Bioinformatics of Madrid, Spain, has released almaZen, a sample management software system for microarray experiments. An online demo is available at http://demos.almabioinfo.com/ almazenv11/jsp/login.html.

 

RefSeq Release 1, the first full release of all RefSeq records from the National Center for Biotechnology Information, is now available by FTP at ftp://ftp.ncbi.nih.gov/refseq/ release/. The release includes genomic, transcript, and protein data available as of June 30, 2003, and includes over 785,000 protein records from 2005 different organisms.

 

Sun Microsystems has worked with the NCBI to develop optimized Solaris 32- and 64-bit binaries for NCBI Blast (available at ftp://ftp.ncbi.nih.gov/blast/executables/ blast-2.2.6-sparc-solaris64.tar.gz and ftp://ftp.ncbi.nih.gov/blast/executables/ blast-2.2.6-sparc-solaris32.tar.gz, respectively), as well as a method for integrating Blast with Sun Grid Engine (available at http://developers.sun.com/ solaris/articles/integrating_blast.html).

 

DNA Software of Ann Arbor, Mich., has launched Visual OMP (Oligonucleotide Modeling Platform) 3, an in silico laboratory environment for designing PCR and microarray-based experiments.

 

The Alternative Splicing Database (ASD) Project at the European Bioinformatics Institute has released a new build of its AltExtron database at http://www.ebi.ac.uk/ asd/altextron/data/index.html. The database, a computer-generated set of alternatively spliced human genes and their properties, is based upon the Feb. 2003 release of EMBL, and includes eight species.

 

A new release of the International Protein Index database is now available from the EBI at ftp://ftp.ebi.ac.uk/ pub/databases/IPI/current/. The database, compiled from Swiss-Prot, Trembl, RefSeq, and Ensembl, contains 56,530 entries for human, 40,320 for mouse, and 28,571 for rat.

 

BioPerl 1.2.2, which includes bug fixes and a number of improved modules, is available at http://www.bioperl.org/ftp/DIST/bioperl-1.2.2.tar.gz.

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