Open Access Highly Accessed Research article

Multi-cancer computational analysis reveals invasion-associated variant of desmoplastic reaction involving INHBA, THBS2 and COL11A1

Hoon Kim1, John Watkinson1, Vinay Varadan2 and Dimitris Anastassiou1*

Author Affiliations

1 Center for Computational Biology and Bioinformatics and Department of Electrical Engineering, Columbia University, New York, NY, USA

2 Philips Research North America, Briarcliff Manor, NY, USA

For all author emails, please log on.

BMC Medical Genomics 2010, 3:51  doi:10.1186/1755-8794-3-51

Published: 3 November 2010

Additional files

Additional file 1:

Heat map of TCGA ovarian cancer data set. This file contains the result of hierarchical clustering for the TCGA ovarian cancer data set using a particular gene set (see text).

Format: PDF Size: 2MB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

Implementation of the EVA algorithm. This file contains the description of a low-complexity implementation of the EVA algorithm.

Format: PDF Size: 295KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 3:

List of genes resulting from EVA algorithm. This file contains the commonly significant probe sets in four ovarian and colorectal cancers data sets.

Format: XLS Size: 39KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 4:

Listing of genes in 9 cancer data sets. This file contains a color-coded list of genes in various cancers ranked in terms of the mutual information with COL11A1.

Format: XLS Size: 38KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 5:

Heat map of neuroblastoma data set. This file contains the result of hierarchical clustering for the neuroblastoma data set (GSE3960) using the MAF signature genes.

Format: PDF Size: 1.7MB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 6:

Heat map of breast cancer data set using MAF signature genes. This file contains the result of hierarchical clustering for the breast cancer data set (GSE4779) using the MAF signature genes.

Format: PDF Size: 334KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 7:

Heat map of breast cancer data set using DCN metagene set. This file contains the result of hierarchical clustering for the breast cancer data set (GSE4779) using the DCN metagene set.

Format: PDF Size: 214KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data