April 14, 2006

May 2, 2006

GNARE Newsletter

This bi-weekly newsletter is intended to keep GNARE users informed about new system capabilities, events such as workshops, seminars and tutorials, as well as other noteworthy items concerning bioinformatics and genome analysis.

Notices:

Bi-weekly consultations are scheduled for May 23, 2006 and June 6, 2006. Subsequent dates will be announced in the upcoming newsletters. Consultations require registration with Elizabeth Glass (marland@mcs.anl.gov or 630-252-1290). These meetings can be face-to-face, over the telephone, or Access Grid (AG). If you have any questions about the AG or how to get it, please email ag-tech@mcs.anl.gov or gnare-techsupport@mcs.anl.gov.

Reminder: We are currently organizing a PUMA2/GNARE tutorial in genetic sequence analysis, bioinformatics, and genomics scheduled for June 15^th and 16^th at the University of Chicago Cummings Life Science Center. This tutorial is targeted for university professors and instructors and will cover basic sequence analysis strategies and detailed instruction on the use of various bioinformatic tools and databases for genome analysis. This tutorial will also be made available for online viewing on the GNARE documentation Web-site. Schedule and

Useful Articles:

Bioinformatic Tools:

· Lao DM, Okuno T, Shimizu T. Evaluating transmembrane topology prediction methods for the effect of signal peptide in topology prediction. In Silico Biol. 2002;2(4):485-94. PMID: 12611628

· Schaffer AA, Aravind L, Madden TL, Shavirin S, Spouge JL, Wolf YI, Koonin EV, Altschul SF. Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. Nucleic Acids Res. 2001 Jul 15;29(14):2994-3005. PMID: 11452024.

If you know of anyone who would be interested in receiving future issues if this newsletter, please email us at: gnare-techsupport@mcs.anl.gov. To unsubscribe to this mailing list, please follow the instructions in the email sent notifying you of your membership.

GNARE (GeNome Analysis and Research Environment) is a bioinformatics server that supports both automated and interactive analysis of user-submitted genomes and metagenomes. It allows scientific groups and individual users to analyze genomic data using an integrated and automated bioinformatics environment based on advanced computational technologies and Grid resources.