Open Access Method

Genome Alteration Print (GAP): a tool to visualize and mine complex cancer genomic profiles obtained by SNP arrays

Tatiana Popova12*, Elodie Manié12, Dominique Stoppa-Lyonnet1234, Guillem Rigaill56, Emmanuel Barillot178 and Marc Henri Stern12

Author Affiliations

1 Centre de Recherche, Institut Curie, 26 rue d'Ulm, Paris, 75248, France

2 INSERM U830, Institut Curie, 26 rue d'Ulm, Paris, 75248, France

3 Department of Tumor Biology, Institut Curie, 26 rue d'Ulm, Paris, 75248, France

4 University Paris Descartes, 12 rue de l'Ecole de Médecine, Paris, 75270, France

5 Translational Research Department, Institut Curie, 1 avenue Claude Vellefaux, Paris, 75475, France

6 MIA 518, AgroParisTech/INRA, 16 rue Claude Bernard, Paris, 75231, France

7 INSERM U900, Institut Curie, 26 rue d'Ulm, Paris, 75248, France

8 Ecole des Mines ParisTech, 35 rue Saint Honoré, Fontainebleau, 77305, France

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Genome Biology 2009, 10:R128  doi:10.1186/gb-2009-10-11-r128

Published: 11 November 2009

Additional files

Additional data file 1:

A table of images of GAP patterns and copy-number recognition templates for a series of breast carcinomas with available DNA indexes

Format: PDF Size: 4.7MB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 2:

A table listing copy-number status of pericentric regions inferred on the basis of GAP pattern for a series of breast carcinomas and cell lines

Format: XLS Size: 43KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional data file 3:

two tables indicating self-consistency in copy-number attribution in dilution series calculated for two methods of recognition: GAP method and OverUnder algorithm

Format: DOC Size: 72KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional data file 4:

GAP patterns and copy-number recognition templates for the dilution series of cell line CRL2324

Format: PDF Size: 4.7MB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data