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Open Access Technical advance

High quality copy number and genotype data from FFPE samples using Molecular Inversion Probe (MIP) microarrays

Yuker Wang1, Victoria EH Carlton1, George Karlin-Neumann1, Ronald Sapolsky1, Li Zhang2, Martin Moorhead1, Zhigang C Wang3, Andrea L Richardson3, Robert Warren4, Axel Walther5, Melissa Bondy2, Aysegul Sahin2, Ralf Krahe2, Musaffe Tuna2, Patricia A Thompson6, Paul T Spellman7, Joe W Gray7, Gordon B Mills2 and Malek Faham1*

Author Affiliations

1 Affymetrix Inc. Santa Clara, CA, USA

2 MD Anderson Cancer Center, Houston, TX, USA

3 DF/BWH Cancer Center, Boston, MA, USA

4 University of California San Francisco, San Francisco, CA, USA

5 Cancer Research UK, London Research Institute, London, UK

6 Arizona Cancer Center, Tucson, AZ, USA

7 Lawrence Berkeley National Laboratory, Berkeley, CA, USA

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BMC Medical Genomics 2009, 2:8 doi:10.1186/1755-8794-2-8

Published: 19 February 2009

Additional files

Additional file 1:

Probes in assay panel.

Format: TXT Size: 833KB Download file

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Additional file 2:

Sample details.

Format: XLS Size: 44KB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 3:

Converting between true and apparent CN and AR given y% contamination with normal DNA and an approximately diploid tumor.

Format: XLS Size: 17KB Download file

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Additional file 4:

Complete Copy Number data.

Format: ZIP Size: 10.2MB Download file

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Additional file 5:

Complete Allele Ratio data.

Format: ZIP Size: 11.5MB Download file

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