GeneCAT--novel webtools that combine BLAST and co-expression analyses

TY - JOUR

T1 - GeneCAT--novel webtools that combine BLAST and co-expression analyses

AU - Mutwil, Marek

AU - Obro, Jens

AU - Willats, William G T

AU - Persson, Staffan

N1 - Keywords: Arabidopsis; Gene Expression Profiling; Gene Regulatory Networks; Genes, Plant; Glucosyltransferases; Hordeum; Internet; Lipids; Oligonucleotide Array Sequence Analysis; Photosynthesis; Sequence Alignment; Software

PY - 2008

Y1 - 2008

N2 - The gene co-expression analysis toolbox (GeneCAT) introduces several novel microarray data analyzing tools. First, the multigene co-expression analysis, combined with co-expressed gene networks, provides a more powerful data mining technique than standard, single-gene co-expression analysis. Second, the high-throughput Map-O-Matic tool matches co-expression pattern of multiple query genes to genes present in user-defined subdatabases, and can therefore be used for gene mapping in forward genetic screens. Third, Rosetta combines co-expression analysis with BLAST and can be used to find 'true' gene orthologs in the plant model organisms Arabidopsis thaliana and Hordeum vulgare (Barley). GeneCAT is equipped with expression data for the model plant A. thaliana, and first to introduce co-expression mining tools for the monocot Barley. GeneCAT is available at http://genecat.mpg.de.

AB - The gene co-expression analysis toolbox (GeneCAT) introduces several novel microarray data analyzing tools. First, the multigene co-expression analysis, combined with co-expressed gene networks, provides a more powerful data mining technique than standard, single-gene co-expression analysis. Second, the high-throughput Map-O-Matic tool matches co-expression pattern of multiple query genes to genes present in user-defined subdatabases, and can therefore be used for gene mapping in forward genetic screens. Third, Rosetta combines co-expression analysis with BLAST and can be used to find 'true' gene orthologs in the plant model organisms Arabidopsis thaliana and Hordeum vulgare (Barley). GeneCAT is equipped with expression data for the model plant A. thaliana, and first to introduce co-expression mining tools for the monocot Barley. GeneCAT is available at http://genecat.mpg.de.

U2 - 10.1093/nar/gkn292

DO - 10.1093/nar/gkn292

M3 - Journal article

C2 - 18480120

SN - 0305-1048

VL - 36

SP - W320-6

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - Web Server issue

ER -