From zhu@iastate.edu  Tue Jan  6 11:57:10 2009
Date: Tue, 06 Jan 2009 11:56:54 -0600
From: Zhiliang Hu <zhu@iastate.edu>
To: Multiple Recipients of <angenmap@animalgenome.org>
Subject: What's new on NAGRP animal genome web site (#1, 2009)

What's new on NAGRP animal genome web site (#1, 2009) 

o A long waited feature -- data download is now made possible on the 
   Animal QTLdb.  Users can download QTL data per chromosome by browsing to 
   respective chromosomes, by click on a chromosome from one of the links: 
   URL: http://www.animalgenome.org/cgi-bin/QTLdb/SS/browse 
   URL: http://www.animalgenome.org/cgi-bin/QTLdb/BT/browse 
   URL: http://www.animalgenome.org/cgi-bin/QTLdb/GG/browse 

o On the QTL chromosomal view pages, users also have options to download 
   subsets of data when the view is refined by key word search. This feature 
   is useful for users to focus on his/her pre-defined data scope. An example 
   of such download: 
   URL: http://www.animalgenome.org/cgi-bin/QTLdb/SS/draw_chromap?optqtl=BFT&chromos=7 

o GBrowse is setup to display genome tracks for cattle and chicken, with 
   QTL locations aligned to the respective genomes. On the alignment view, 
   QTL details can be viewed with pop-up text box by mouse-over the QTL 
   line, or for further QTL details by clicking on the QTL line. 
   URL: http://www.animalgenome.org/cgi-bin/gbrowse/cattle/ 
   URL: http://www.animalgenome.org/cgi-bin/gbrowse/chicken/ 

o Animal QTLdb main pages for cattle, pigs and chicken are revised to 
   accommodate the recently implemented changes for users to easily locate 
   the needed service links: 
   URL: http://www.animalgenome.org/QTLdb/pig.html 
   URL: http://www.animalgenome.org/QTLdb/cattle.html 
   URL: http://www.animalgenome.org/QTLdb/chicken.html 

o An ontology web browser tool from the GO consortium, AmiGO, is setup 
   for Animal Trait Ontology browse and search.  The new AmiGO is much 
   improved for browse and search. 
   URL: http://www.animalgenome.org/bioinfo/projects/ATO/amigo 

o A web-based program, CateGOrizer (previously known as "GO Terms 
   Categorization Counter"), is officially released for public use. The 
   tool is designed to batch analyze GO class categories, useful in GO 
   class analysis for large EST or microarray studies.  A paper by Hu 
   et al published on OJB 9(2):108-112, describes the tool. 
   URL: http://www.animalgenome.org/bioinfo/tools/catego/ 

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