Laura,
If what you seek is the identification on yeast genes you can use a
the Saccharomyces Genome Database (SGD) resource. We provide several
downloadable tables that contain information on all standard yeast
genes. If you are just interested in protein encoding genes the files
in the following directory might be of use to you.
ftp://genome-ftp.stanford.edu/yeast/tables/ORF_Descriptions/
a text and TAB version is available.
The orf_descriptions.txt file contains the columns:
ORF Gene Process Function
The Process and Function columns are now truncated to 30 characters.
The orf_descriptions.tab file contains the columns:
ORF Gene Length Process Function SGDID
Length and SGDID are new columns. No columns are truncated.
You can also browse the SGD database starting at:
http://genome-www.stanford.edu/cgi-bin/SGD/search
the main home for SGD is at:
http://genome-www.stanford.edu/Saccharomyces/
SGD also provides a BLAST resource. The output provides links into
the database, and to others where appropriate.
http://genome-www2.stanford.edu/cgi-bin/SGD/nph-blast2sgd
Mike
J. Michael Cherry, Ph.D. Internet: cherry at genome.stanford.edu
Department of Genetics Stanford University School of Medicine
Medical Center, Room M341 Stanford, California 94305-5120
Voice: 650-723-7541 FAX: 650-723-7016
>> I am trying to categorize BLAST results into gene/enzyme/metabolic
> categories. Does anyone know of a reference that gives standards used in
> yeast and/or E. coli for such categories. I have searched a number of the
> bionet archives to no avail after seeing mention of such a reference a few
> weeks ago. Thanks for any information you might have.
>> Laura Fredrick Marek
> Iowa State University
>lmarek at iastate.edu>---
______________O_________oO_____________oO______o_______oO___________________
YEAST bionet newsgroup see: http://www.bio.net/hypermail/YEAST/
YEAST e-mail: messages sent to yeast at net.bio.net
subscribe: e-mail biosci-server at net.bio.net with: subscribe yeast
unsubscribe: e-mail biosci-server at net.bio.net with: unsubscribe yeast
YEAST on the WWW: http://genome-www.stanford.edu/Saccharomyces/VL-yeast.html
problems with the YEAST newsgroup? E-mail the moderator: francis at cmmt.ubc.ca
