Biclustering via optimal re-ordering of data matrices in systems biology: rigorous methods and comparative studies

doi:10.1186/1471-2105-9-458

BMC Bioinformatics
Volume 9

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DiMaggio PA
McAllister SR
Floudas CA
Feng XJ
Rabinowitz JD
Rabitz HA

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Floudas CA
Feng XJ
Rabinowitz JD
Rabitz HA
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Research article

Biclustering via optimal re-ordering of data matrices in systems biology: rigorous methods and comparative studies

Peter A DiMaggio Jr¹ , Scott R McAllister¹ , Christodoulos A Floudas¹ , Xiao-Jiang Feng² , Joshua D Rabinowitz² and Herschel A Rabitz²

¹Department of Chemical Engineering, Princeton University, Princeton, NJ, USA

²Department of Chemistry, Princeton University, Princeton, NJ, USA

author email corresponding author email

BMC Bioinformatics 2008, 9:458doi:10.1186/1471-2105-9-458


Published:	27 October 2008

Additional files

Additional file 1:

This additional file contains all of the additional figures and results referenced in the article.

Format: PDF Size: 1.4MB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional file 2:

This text file contains the results for the biclustering algorithms Cheng and Church's, ISA, OPSM, BiMax, xMotif, and SAMBA for the Alon et. al colon cancer data set.

Format: TXT Size: 94KB Download file

Additional file 3:

This Excel spreadsheet contains the complete ontology results for all biclustering algorithms using Onto-Express for the Alon et al. and van't Veer cancer data sets.

Format: XLS Size: 36KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 4:

This text file contains the results for the biclustering algorithms Cheng and Church's, ISA, OPSM, BiMax, xMotif, and SAMBA for the van't Veer et al. breast cancer data set.

Format: TXT Size: 203KB Download file

Additional file 5:

This text file contains the corresponding clusters for OREO described in the article for the Eisen et al. budding yeast data set (described in Additional file1).

Format: TXT Size: 12KB Download file