Go Back   Science Forums Biology Forum Molecular Biology Forum Physics Chemistry Forum > Molecular Research Topics Forum > Animal and Molecular Model Systems > Arabidopsis and Plant Biology
Register Search Today's Posts Mark Forums Read

Arabidopsis and Plant Biology Discuss Arabidopsis and Plant Biology Research.

BAR news, Feb. 2009: new interaction data sets and promoter tools

BAR news, Feb. 2009: new interaction data sets and promoter tools - Arabidopsis and Plant Biology

BAR news, Feb. 2009: new interaction data sets and promoter tools - Discuss Arabidopsis and Plant Biology Research.

LinkBack Thread Tools Display Modes
Old 02-17-2009, 10:06 PM
Nicholas Provart
Posts: n/a
Default BAR news, Feb. 2009: new interaction data sets and promoter tools

Hello Arabidopsis Researchers,

A couple of news items for the Bio-Array Resource (BAR) at
[Only registered users see links. ].

1. We have updated our Arabidopsis Interactions Viewer (AIV) to include Dr.
Matt Geisler's updated Interactome 2.0, which more than triples the number
of predicted interactions in Arabidopsis to 70,944 by incorporating
interaction data sets from many more organisms to compute Arabidopsis
interologs. We have also added 1,276 MAP Kinase/target interactions
determined using protein microarrays by Sorina Popescu and colleagues in
Dinesh-Kumar's lab at Yale and published recently in Genes and Development,
for a total of 2,779 literature-supported interactions. The AIV images now
link to SVG graphic format files for high quality visualizations.

2. Two new tools, Cistome and Cistome Map, are now available. Cistome
permits cis-element prediction using a variety of 3rd party packages, as
well as with a new version of Promomer, Promomer2, which is an enumerative
program that allows for degeneracy in potential cis-elements. Additionally,
known cis-elements from PLACE may be mapped onto promoter sets. Cistome Map
allows consensus sequences or PSSMs to be mapped onto diagrammatic
representations of TAIR8 promoter sequences with defined transcriptional

Feedback, as always, is welcome. Keep an eye out in the coming months for a
Medicago truncatula eFP Browser, as well as for the Affymetrix Whole Genome
Tiling Array At-TAX data sets from the Weigel laboratory in our existing
Arabidopsis eFP Browser.


Nicholas Provart, PhD
Assistant Professor, Plant Bioinformatics & Systems Biology
Director, Graduate Program in Genome Biology and Bioinformatics
Member, Centre for the Analysis of Genome Evolution and Function
Rm 3051, Dept. of Cell and Systems Biology, Uni. Toronto
25 Willcocks St., Toronto, ON. M5S 3B2. CANADA

Tel. (+1) (416) 978-7141, Fax. (+1) (416) 978-5878
URL. [Only registered users see links. ]
The Bio-Array Resource. [Only registered users see links. ]
email. [Only registered users see links. ]
TTC. Spadina LRT, Willcocks St.

Reply With Quote

2009 , bar , data , feb , interaction , news , promoter , sets , tools

Thread Tools
Display Modes

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off
Trackbacks are On
Pingbacks are On
Refbacks are On

Forum Jump

Similar Threads
Thread Thread Starter Forum Replies Last Post
Trainings/Projects on Bioinformatics,Molecular Biology,MicroBiology,DrugDesigning and SAS Programming at Global Institute of Biotechnology Global Institute of Biotechnology Protocols and Methods Forum 0 11-28-2007 12:31 PM

All times are GMT. The time now is 10:46 PM.

Powered by vBulletin® Version 3.8.4
Copyright ©2000 - 2015, Jelsoft Enterprises Ltd.
Copyright 2005 - 2012 Molecular Station | All Rights Reserved
Page generated in 0.11776 seconds with 16 queries