Bioinformatics Links Directory : Plants

In this section are links specific to plant resources including those for Maize and Arabidopsis.

ACT - (Found June 24, 2008 )

Arabidopsis Co-expression Tool (ACT) is a resource for investigating the co-expression of genes in the NASCGARNet microarray-based gene expression dataset from Arabidopsis.
http://www.arabidopsis.leeds.ac.uk/act/coexpanalyser.php

WhETS - (Found June 24, 2008 )

WhETS (Wheat Estimated Transcript Server) is a resource that combines Triticeae ESTsmRNAs with rice genes to find the best estimate of hexaploid wheat transcript sequences for a target gene, supplemented with information on tissue distribution and likely gene structure, to aid in primer design.
http://www4.rothamsted.bbsrc.ac.uk/whets/cgi-bin/whets1.2/whets_home.pl

TIGR Plant Gene Indicies - (Found June 24, 2008 )

Gene indicies for a number of plants including Arabidopsis, grape, and maize.
http://www.tigr.org/tdb/tgi/plant.shtml

The Arabidopsis Information Resource (TAIR) - (Found June 24, 2008 )

Comprehensive resource for the scientific community working with Arabidopsis thaliana.
http://www.arabidopsis.org/

RiceTFDB - (Found June 24, 2008 )

RiceTFDB(Rice Transcription Factor DataBase) is a database of sequences and alignments for transcription factors in Rice.
http://ricetfdb.bio.uni-potsdam.de/

Maize Genetics and Genomics Database - (Found June 24, 2008 )

A central repository for public maize information.
http://www.maizegdb.org/

LTR_Finder - (Found June 24, 2008 )

LTR_Finder (Long Terminal Repeat Finder) is an efficient program for finding full-length LTR retrotransposons in genome sequences.
http://tlife.fudan.edu.cn/ltr_finder/

InterologRegulog Database - (Found June 24, 2008 )

Database of protein orthologs that interact (interologs) and proteins with conserved regulatory relationships across species (regulogs). Contains data for C. elegans, Drosophila, Arabidopsis, and Yeast.
http://interolog.gersteinlab.org/

Genome Database for Rosaceae - (Found June 24, 2008 )

Genome Database for Rosaceae (GDR) contains all publically available Rosaceae sequences including annotated peach, strawberry and almond EST sequences and the genetically anchored peach physical map.
http://www.genome.clemson.edu/gdr/

GeneSeqer - (Found June 24, 2008 )

GeneSeqer is a method to identify exonintron structure by splice site prediction and spliced alignment in plant genomes.
http://www.plantgdb.org/PlantGDB-cgi/GeneSeqer/PlantGDBgs.cgi