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Automated array-CGH optimized for archival formalin-fixed, paraffin-embedded tumor material

Simon A Joosse1, Erik H van Beers1 and Petra M Nederlof2*

Author Affiliations

1 Division of Experimental Therapy, the Netherlands Cancer Institute, Amsterdam, The Netherlands

2 Department of Pathology, the Netherlands Cancer Institute, Amsterdam, The Netherlands

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BMC Cancer 2007, 7:43 doi:10.1186/1471-2407-7-43

Published: 7 March 2007

Additional files

Additional file 1:

This file includes the aberrations calculated by CGH-segmentation for the SKBR3 CGH profiles hybridized by Pollack et al., Shadeo and Lam, Jong et al., manually, automatically, and hybridized FFPE SKBR3. Calling copy number changes by setting thresholds allowed comparison of different hybridization platforms and methods.

Format: TXT Size: 36KB Download file

Open Data

Additional file 2:

This picture shows the copy number calls (Y-axis) from SKBR3 CGH profiles per chromosome (X-axis), hybridized by Pollack et al., Shadeo and Lam, Jong et al., manually, automatically, and hybridized FFPE SKBR3. Gain at 1, unchanged at 0, heterozygous loss at -1, and homozygous loss at -2.

Format: JPEG Size: 202KB Download file

Open Data