ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling.
We present the ISACGH, a web-based system that allows for the combination of genomic data with gene expression values and provides different options for functional profiling of the regions found. Several visualization options offer a convenient representation of the results. Different efficient methods for accurate estimation of genomic copy number from array-CGH hybridization data have been included in the program. Moreover, the connection to the gene expression analysis package GEPAS allows the use of different facilities for data pre-processing and analysis. A DAS server allows exporting the results to the Ensembl viewer where contextual genomic information can be obtained. The program is freely available at: http://isacgh.bioinfo.cipf.es or within http://www.gepas.org.
Conde
Lucía
L
Bioinformatics Department, Centro de Investigación Príncipe Felipe, INB, CIPF, Valencia 46013, Spain.
Montaner
David
D
Burguet-Castell
Jordi
J
Tárraga
Joaquín
J
Medina
Ignacio
I
Al-Shahrour
Fátima
F
Dopazo
Joaquín
J
D000818:Animals; D016000:Cluster Analysis; D019295:Computational Biology / Q000379:methods*; D003196:Computer Graphics; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D020407:Internet; D008957:Models, Genetic; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D011381:Programming Languages; D012984:Software; D018511:Systems Integration; D014584:User-Computer Interface