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 meth...

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Bibliographic Details
Published in:Nucleic acids research 2007-07, Vol.35 (Web Server issue), p.W81-W85
Main Authors: Conde, Lucía, Montaner, David, Burguet-Castell, Jordi, Tárraga, Joaquín, Medina, Ignacio, Al-Shahrour, Fátima, Dopazo, Joaquín
Format: Article
Language:English
Subjects:
Animals
Cluster Analysis
Computational Biology - methods
Computer Graphics
Gene Expression Profiling - methods
Humans
Internet
Models, Genetic
Nucleic Acid Hybridization
Oligonucleotide Array Sequence Analysis - methods
Programming Languages
Software
Systems Integration
User-Computer Interface
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Summary: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.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkm257