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Open Access Highly Accessed Methodology article

Markov Chain Ontology Analysis (MCOA)

H Robert Frost* and Alexa T McCray

Author Affiliations

Center for Biomedical Informatics, Harvard Medical School, Boston, MA 02115, USA

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BMC Bioinformatics 2012, 13:23  doi:10.1186/1471-2105-13-23

Published: 3 February 2012

Additional files

Additional File 1:

Gene Ontology term overlap statistics with Homo sapiens annotations.

Format: PDF Size: 64KB Download file

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Open Data

Additional File 2:

Benchmarking results on simulated Escherichia coli data sets for false positive rate (q) of 0.01 and false negative rate (1-p) of 0.1.

Format: PDF Size: 116KB Download file

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Additional File 3:

Benchmarking results on simulated Drosophila Melanogaster data sets for false positive rate (q) of 0.01 and false negative rate (1-p) of 0.1.

Format: PDF Size: 116KB Download file

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Additional File 4:

Benchmarking results on simulated Homo sapiens data sets for false positive rate (q) of 0.01 and false negative rate (1-p) of 0.1.

Format: PDF Size: 116KB Download file

This file can be viewed with: Adobe Acrobat Reader

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Additional File 5:

Benchmarking results on simulated Escherichia coli data sets for false positive rate (q) of 0.4 and false negative rate (1-p) of 0.25.

Format: PDF Size: 121KB Download file

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Open Data

Additional File 6:

Benchmarking results on simulated Drosophila Melanogaster data sets for false positive rate (q) of 0.4 and false negative rate (1-p) of 0.25.

Format: PDF Size: 125KB Download file

This file can be viewed with: Adobe Acrobat Reader

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Additional File 7:

Benchmarking results on simulated Homo sapiens data sets for false positive rate (q) of 0.4 and false negative rate (1-p) of 0.25.

Format: PDF Size: 120KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional File 8:

Benchmarking results on simulated Escherichia coli data sets for false positive rate (q) of 0.1 and false negative rate (1-p) of 0.1.

Format: PDF Size: 119KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional File 9:

Benchmarking results on simulated Drosophila Melanogaster data sets for false positive rate (q) of 0.1 and false negative rate (1-p) of 0.1.

Format: PDF Size: 120KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional File 10:

Benchmarking results on simulated Homo sapiens data sets for false positive rate (q) of 0.1 and false negative rate (1-p) of 0.1.

Format: PDF Size: 118KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional File 11:

Benchmarking results on simulated Escherichia coli data sets for false positive rate (q) of 0.1 and false negative rate (1-p) of 0.4.

Format: PDF Size: 128KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional File 12:

Benchmarking results on simulated Drosophila Melanogaster data sets for false positive rate (q) of 0.1 and false negative rate (1-p) of 0.4.

Format: PDF Size: 121KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional File 13:

Benchmarking results on simulated Homo sapiens data sets for false positive rate (q) of 0.1 and false negative rate (1-p) of 0.4.

Format: PDF Size: 118KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional File 14:

Relative execution time statistics on simulated Homo sapiens data.

Format: PDF Size: 65KB Download file

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Additional File 15:

Full analysis results for MCOA on GEO dataset GDS3129.

Format: TXT Size: 720KB Download file

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Additional File 16:

Full analysis results for hypergeometric method on GEO dataset GDS3129.

Format: TXT Size: 952KB Download file

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Additional File 17:

Full analysis results for MGSA method on GEO dataset GDS3129.

Format: TXT Size: 722KB Download file

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Additional File 18:

Full analysis results for GenGO method on GEO dataset GDS3129.

Format: TXT Size: 560KB Download file

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Additional File 19:

Research linking top ten GO terms returned by MCOA on GEO dataset GDS3129 and Parkinson's disease.

Format: PDF Size: 141KB Download file

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Open Data