CAPweb: a bioinformatics CGH array Analysis Platform

Abstract : Assessing variations in DNA copy number is crucial for understanding constitutional or somatic diseases, particularly cancers. The recently developed array-CGH (comparative genomic hybridization) technology allows this to be investigated at the genomic level. We report the availability of a web tool for analysing array-CGH data. CAPweb (CGH array Analysis Platform on the Web) is intended as a user-friendly tool enabling biologists to completely analyse CGH arrays from the raw data to the visualiza-tion and biological interpretation. The user typically performs the following bioinformatics steps of a CGH array project within CAPweb: the secure upload of the results of CGH array image analysis and of the array annotation (genomic position of the probes); first level analysis of each array, including automatic nor-malization of the data (for correcting experimental biases), breakpoint detection and status assignment (gain, loss or normal); validation or deletion of the analysis based on a summary report and quality criteria ; visualization and biological analysis of the genomic profiles and results through a user-friendly interface. CAPweb is accessible at http://bioinfo. curie.fr/CAPweb.
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Stéphane Liva, Philippe Hupé, Pierre Neuvial, Isabel Brito, Eric Viara, et al.. CAPweb: a bioinformatics CGH array Analysis Platform. Nucleic Acids Research, Oxford University Press, 2006, 34 (W), pp.477-481. ⟨10.1093/nar/gkl215⟩. ⟨hal-01199870⟩

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