title: ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling.
abstract: 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.
authors.affiliation: Bioinformatics Department, Centro de Investigación Príncipe Felipe, INB, CIPF, Valencia 46013, Spain.
authors.forename: Lucía
authors.initials: L
authors.lastname: Conde
authors.forename: David
authors.initials: D
authors.lastname: Montaner
authors.forename: Jordi
authors.initials: J
authors.lastname: Burguet-Castell
authors.forename: Joaquín
authors.initials: J
authors.lastname: Tárraga
authors.forename: Ignacio
authors.initials: I
authors.lastname: Medina
authors.forename: Fátima
authors.initials: F
authors.lastname: Al-Shahrour
authors.forename: Joaquín
authors.initials: J
authors.lastname: Dopazo
mesh_terms: 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