ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling.

TitleISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling.
Publication TypeJournal Article
Year of Publication2007
AuthorsConde, L, Montaner, D, Burguet-Castell, J, Tárraga, J, Medina, I, Al-Shahrour, F, Dopazo, J
JournalNucleic Acids Res
Volume35
IssueWeb Server issue
PaginationW81-5
Date Published2007 Jul
ISSN1362-4962
KeywordsAnimals; Cluster Analysis; Computational Biology; Computer Graphics; Gene Expression Profiling; Humans; Internet; Models, Genetic; Nucleic Acid Hybridization; Oligonucleotide Array Sequence Analysis; Programming Languages; Software; Systems Integration; User-Computer Interface
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.

DOI10.1093/nar/gkm257
Alternate JournalNucleic Acids Res.
PubMed ID17468499
PubMed Central IDPMC1933149