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Softberry, GenBank, University of Pittsburgh, Harvard Medical School, Protein Data Bank

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Softberry has added gene-finding parameters for Nicotiana tabacum to its Fgenesh gene prediction program at www.softberry.com/ berry.phtml?topic=gfind. According to the company, the accuracy of prediction for Nicotiana tabacum protein-coding genes is about 98 percent on the nucleotide level.

GenBank Release 133.0 is now available from the NCBI at ftp.ncbi.nih.gov. Release 133.0 contains 28,507,990,166 base pairs and 22,318,883 entries, up by 1.98 billion base pairs and by 2,510,782 sequence records from the October 132.0 release. Uncompressed, the 133.0 flat files require about 94.33 GB for the sequence files only. The ASN.1 version requires around 84.21 GB.

The University of Pittsburgh has released an expanded version of its Bioinformatics Web Tool Collection at http://bioinformatics.upmc.edu/. The collection now includes an online gene expression data analysis tool at http://bioinformatics.upmc.edu/ GE2/GEDA.html.

Technical publisher Prentice Hall PTR (Professional Technical Reference) has released Bioinformatics Computing. The book, authored by Harvard Medical School professor Bryan Bergeron, is a “practical guide” for biologists interested in learning about recent computational advances that relate to their work, according to the publisher.

A new mirror site for the Protein Data Bank has been created at the Max Delbr ck Center for Molecular Medicine in Berlin, Germany, at www.pdb.mdc-berlin.de/. The PDB now has eight worldwide mirror sites.

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