IUBio Biosequences .. Software .. Molbio soft .. Network News .. FTP


Win Hide winhide at sanbi.ac.za
Mon Dec 6 20:51:39 EST 1999

SANBI announces the release of STACK 2.31 : A Whole aligned Gene Index
of Human sequences, as well as underlying tissue specific indices. The
release is regularly updated with cross-links to UniGene and is
supported with consensus, assembly analysis and alignment viewing and
extraction at SANBI's website www.sanbi.ac.za/Dbases.html. The database
is the only currently existing system that includes a co-distribution of
the tools used to cluster and manage the production of the data.

STACK_PACK 0.8 alpha: Serial-capable, Parallelised versions of the
clustering code(s) are currently available for SGI, SUN and LINUX
platforms, (COMPAQ to be released very shortly).

STACKdb 2.31 is the first STACKdb release that contains the
whole-body-index section derived from the tissue-based clusters of the
same release.  In the past, the whole-body index section was delivered
after the tissue-based clusters.

The method employed and assessment of quality of the resource is fully
described in:

A Comprehensive Approach to Clustering of Expressed Human Gene Sequence:
The Sequence Tag Alignment and Consensus Knowledge Base
Robert T. Miller, Alan G. Christoffels, Chella Gopalakrishnan, John
Andrey A. Ptitsyn, Tania R. Broveak, and Winston A. Hide. November 1999:
Genome Research: 9:1143-1155


d2_cluster: A Validated Method for Clustering EST and Full-Length cDNA
John Burke, Dan Davison, and Winston Hide. November 1999: Genome
Research: 9:1135-1142

The distribution contains documentation such as:

  * HOWTO.txt             how to get the most from searching STACKdb
  * STACK2.31_notes.txt   release notes and statistics for tissue-based
  * index2_31.txt         release notes and statistics for
  * tissue_tree.txt       strategy for separating ESTs into tissue

More information about the Bionews mailing list

Send comments to us at biosci-help [At] net.bio.net