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

New Release of STACKdb - Free academic availability

Liza Groenewald liza at egenetics.com
Tue Oct 1 19:38:20 EST 2002

                      STACKdb v3.1

     The STACKdb Human Gene Expression Index, provided free to
    academics, is now provided with a comprehensive full-length
   mRNA index and additional output reports containing potential
                 alternate expression forms

The latest version of the STACK database of reconstructed human
expressed transcripts, STACKdb v3.1, has been released by The South
African National Bioinformatics Institute (SANBI), in collaboration with
Electric Genetics.

STACKdb v3.1 is an exhaustively processed set of transcripts based on
all human EST and mRNA sequences from GB125.0, 24 August 2001,
downloaded from NCBI as of 25 August 2001. 1,761,079 new EST and 87,085
new mRNA sequences have been added to the STACKdb v3.0 data to form
270,515 clusters and 5,711 clonelinks in total. The database is
organized into 15 tissue-based categories and a disease category.

This is the first STACKdb release that includes:
 - Alternate consensus sequences in FastA format that represent
potential alternate expression forms.
 - A comprehensive full-length mRNA index consisting of all mRNA
sequences within HTD, MGC and RefSeq as a preview to the next release of
STACKdb. STACKdb v4.0 will consist of a whole body index with the mRNA
index acting as a scaffold for the EST sequences.

Please refer to the STACKdb v3.1 release notes for a list of all new
features and improvements.

The database is available free of charge to academic and non-profit

To download STACKdb register at www.sanbi.ac.za/CODES. The Swiss
Institute of Bioinformatics collaborates with SANBI to serve STACKdb
download from the Swiss Institute of Bioinformatics web site ensuring
faster download times.

The database may also be searched from 15 October 2002 on-line by
comparing a query sequence to any of the STACKdb categories at

Electric Genetics develops and maintains STACKdb v3.1 and provides
technical support for both academic and commercial users. Your feedback
is greatly valued and any comments, questions or suggestions can be sent
to support at egenetics.com.

For further information on STACKdb, please refer to the Electric
Genetics website: www.egenetics.com/db.html

For further information on research at the South African National
Bioinformatics Institute, please visit:

More information about the Bionews mailing list

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