Email updates

Keep up to date with the latest news and content from Genome Biology and BioMed Central.

Open Access Highly Accessed Research

Analysis of gene expression in a developmental context emphasizes distinct biological leitmotifs in human cancers

Kamila Naxerova1, Carol J Bult2, Anne Peaston2, Karen Fancher2, Barbara B Knowles2, Simon Kasif13 and Isaac S Kohane1*

Author Affiliations

1 Children's Hospital Informatics Program, Harvard-MIT Division of Health Sciences and Technology, Longwood Avenue, Boston, MA 02115, USA

2 The Jackson Laboratory, Main Street, Bar Harbor, ME 04609, USA

3 Department of Biomedical Engineering, Boston University, Cummington Street, Boston, MA 02215, USA

For all author emails, please log on.

Genome Biology 2008, 9:R108  doi:10.1186/gb-2008-9-7-r108

Published: 8 July 2008

Additional files

Additional data file 1:

Frequency plots for all cancer types and all developmental time series.

Format: PDF Size: 641KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 2:

Frequency plots for all cancers and all time series after CC subtraction.

Format: PDF Size: 638KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 3:

Frequency plots for the top 450 differentially expressed genes in CRCC1 and CRCC2.

Format: PDF Size: 25KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 4:

Heatmap of probability distribution slopes after CC subtraction (analogously to Figure 3).

Format: PDF Size: 48KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 5:

Heatmap of enrichment p-values for gene sets that ranked among the 20 most enriched in the downregulated genes of either group 1, 2 or 3.

Format: PDF Size: 54KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 6:

Detailed annotation for all data sets used in this study.

Format: XLS Size: 36KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional data file 7:

Raw data for the lung development validation time series (after RMA-normalization).

Format: TXT Size: 4.1MB Download file

Open Data

Additional data file 8:

This shows a bimodal distribution with the left peak containing group 3 tumors, the right peak containing group 1 tumors and intermediate cases (group 2) falling in between.

Format: PDF Size: 11KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 9:

Probability distribution plots and linear regression fits for all cancers and all time series.

Format: PDF Size: 1.1MB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional data file 10:

The same data as additional data file 9, but after CC subtraction.

Format: PDF Size: 1MB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data