CAPweb: a bioinformatics CGH array Analysis Platform.
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 visualization 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 normalization 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.
Liva
Stéphane
S
Institut Curie, Service Bioinformatique 26 rue d'Ulm, 75248 Paris Cedex 05, France. capweb@curie.fr
Hupé
Philippe
P
Neuvial
Pierre
P
Brito
Isabel
I
Viara
Eric
E
La Rosa
Philippe
P
Barillot
Emmanuel
E
D019457:Chromosome Breakage; D019295:Computational Biology / Q000379:methods*; D003196:Computer Graphics; D004247:DNA / Q000032:analysis; D018628:Gene Dosage; D023281:Genomics / Q000379:methods*; D020407:Internet; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012984:Software; D014584:User-Computer Interface
D004247:DNA