From zhu@iastate.edu Wed Aug 6 11:47:08 2008 Date: Wed, 06 Aug 2008 11:45:29 -0500 From: Zhiliang Hu To: Multiple Recipients of Subject: What's new on NAGRP animal genome web site (#2, 2008) What's new on NAGRP animal genome web site (#2, 2008) --1-- A new computational pipeline, called "SNPidentifier", to discover SNPs based on CAP3 alignments is available for free download. For details, see Bowen et al., "SNP discovery in Litopenaeus vannamei with a new computational pipeline" (in the coming issue of Animal Genetics). URL: http://www.animalgenome.org/bioinfo/tools/share/SNPidentifier/ (Updated: Jul 26, 2008) --2-- NAGRP Blast Server: Several improvements have been continuously made. o mpiBlast are added to NAGRP blast engines to make use of the power of the new cluster computer acquired a while ago. URL: http://www.animalgenome.org/blast/ (Updated: Mar. 27, 2008) o The NAGRP Blast Center has updated its sequence database by adding 10+ New sequence databases. The sequence database verses blast engine (mpiBLAST and ncbiBLAST) selection is re-organized so that heavy duty jobs is normally handled with mpiBLAST. URL: http://www.animalgenome.org/blast/ (Updated: Apr. 10, 2008) o Traditional Blast revived for some large data sets (parallel to mpiBLAST) to meet the needs for graphics representation of blast results as requested by users. URL: http://www.animalgenome.org/blast/ (Updated: May 20, 2008) o New draft pig genome assembly sequences are updated for blast database. It's planned that the update will be made quarterly when the Sanger Institute regularly releases the new assembly. URL: http://www.animalgenome.org/blast/ (Last updated: June 11, 2008) --3-- QTLdb: Thanks to efforts by Cathy Ernst's group at the Michigan State University, 156 new pig QTL were added to the pig QTL database. URL: http://www.animalgenome.org/QTLdb/ (Updated: Fed. 17, 2008) --4-- Animal Trait Ontology (ATO) web site has been updated to reflect the recent progress we have made. URL: http://www.animalgenome.org/bioinfo/projects/ATO/ (Updated: Jan. 27, 2008) Check out "what's new" page for more up-to-date information on the site: http://www.animalgenome.org/news/whatsnew.html -- NAGRP Bioinfo Team bioinfo-team@animalgenome.org