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Enrichment Map - a Cytoscape app to visualize and explore OMICs pathway enrichment results.

F1000Research

Isserlin R, Merico D, Voisin V, Bader GD.
PMID: 25075306
F1000Res. 2014 Jul 01;3:141. doi: 10.12688/f1000research.4536.1. eCollection 2014.

High-throughput OMICs experiments generate signals for millions of entities (i.e. genes, proteins, metabolites or any measurable biological entity) in the cell. In an effort to summarize and explore these signals, expression results are examined in the context of known...

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Isserlin R, Merico D, Voisin V, et al. Enrichment Map - a Cytoscape app to visualize and explore OMICs pathway enrichment results. F1000Res. 2014;3:141doi: 10.12688/f1000research.4536.1.
Isserlin, R., Merico, D., Voisin, V., & Bader, G. D. (2014). Enrichment Map - a Cytoscape app to visualize and explore OMICs pathway enrichment results. F1000Research, 3141. https://doi.org/10.12688/f1000research.4536.1
Isserlin, Ruth, et al. "Enrichment Map - a Cytoscape app to visualize and explore OMICs pathway enrichment results." F1000Research vol. 3 (2014): 141. doi: https://doi.org/10.12688/f1000research.4536.1
Isserlin R, Merico D, Voisin V, Bader GD. Enrichment Map - a Cytoscape app to visualize and explore OMICs pathway enrichment results. F1000Res. 2014 Jul 01;3:141. doi: 10.12688/f1000research.4536.1. eCollection 2014. PMID: 25075306; PMCID: PMC4103489.
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Molecular signatures database (MSigDB) 3.0.

Bioinformatics (Oxford, England)

Liberzon A, Subramanian A, Pinchback R, Thorvaldsdóttir H, Tamayo P, Mesirov JP.
PMID: 21546393
Bioinformatics. 2011 Jun 15;27(12):1739-40. doi: 10.1093/bioinformatics/btr260. Epub 2011 May 05.

MOTIVATION: Well-annotated gene sets representing the universe of the biological processes are critical for meaningful and insightful interpretation of large-scale genomic data. The Molecular Signatures Database (MSigDB) is one of the most widely used repositories of such sets.RESULTS: We...

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Liberzon A, Subramanian A, Pinchback R, et al. Molecular signatures database (MSigDB) 3.0. Bioinformatics. 2011;27(12):1739-40doi: 10.1093/bioinformatics/btr260.
Liberzon, A., Subramanian, A., Pinchback, R., Thorvaldsdóttir, H., Tamayo, P., & Mesirov, J. P. (2011). Molecular signatures database (MSigDB) 3.0. Bioinformatics (Oxford, England), 27(12), 1739-40. https://doi.org/10.1093/bioinformatics/btr260
Liberzon, Arthur, et al. "Molecular signatures database (MSigDB) 3.0." Bioinformatics (Oxford, England) vol. 27,12 (2011): 1739-40. doi: https://doi.org/10.1093/bioinformatics/btr260
Liberzon A, Subramanian A, Pinchback R, Thorvaldsdóttir H, Tamayo P, Mesirov JP. Molecular signatures database (MSigDB) 3.0. Bioinformatics. 2011 Jun 15;27(12):1739-40. doi: 10.1093/bioinformatics/btr260. Epub 2011 May 05. PMID: 21546393; PMCID: PMC3106198.
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Constellation Map: Downstream visualization and interpretation of gene set enrichment results.

F1000Research

Tan Y, Wu F, Tamayo P, Haining WN, Mesirov JP.
PMID: 26594333
F1000Res. 2015 Jun 24;4:167. doi: 10.12688/f1000research.6644.1. eCollection 2015.

UNLABELLED: Gene set enrichment analysis (GSEA) approaches are widely used to identify coordinately regulated genes associated with phenotypes of interest. Here, we present Constellation Map, a tool to visualize and interpret the results when enrichment analyses yield a long...

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Tan Y, Wu F, Tamayo P, et al. Constellation Map: Downstream visualization and interpretation of gene set enrichment results. F1000Res. 2015;4:167doi: 10.12688/f1000research.6644.1.
Tan, Y., Wu, F., Tamayo, P., Haining, W. N., & Mesirov, J. P. (2015). Constellation Map: Downstream visualization and interpretation of gene set enrichment results. F1000Research, 4167. https://doi.org/10.12688/f1000research.6644.1
Tan, Yan, et al. "Constellation Map: Downstream visualization and interpretation of gene set enrichment results." F1000Research vol. 4 (2015): 167. doi: https://doi.org/10.12688/f1000research.6644.1
Tan Y, Wu F, Tamayo P, Haining WN, Mesirov JP. Constellation Map: Downstream visualization and interpretation of gene set enrichment results. F1000Res. 2015 Jun 24;4:167. doi: 10.12688/f1000research.6644.1. eCollection 2015. PMID: 26594333; PMCID: PMC4648224.
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The Molecular Signatures Database (MSigDB) hallmark gene set collection.

Cell systems

Liberzon A, Birger C, Thorvaldsdóttir H, Ghandi M, Mesirov JP, Tamayo P.
PMID: 26771021
Cell Syst. 2015 Dec 23;1(6):417-425. doi: 10.1016/j.cels.2015.12.004.

The Molecular Signatures Database (MSigDB) is one of the most widely used and comprehensive databases of gene sets for performing gene set enrichment analysis. Since its creation, MSigDB has grown beyond its roots in metabolic disease and cancer to...

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Liberzon A, Birger C, Thorvaldsdóttir H, et al. The Molecular Signatures Database (MSigDB) hallmark gene set collection. Cell Syst. 2015;1(6):417-425doi: 10.1016/j.cels.2015.12.004.
Liberzon, A., Birger, C., Thorvaldsdóttir, H., Ghandi, M., Mesirov, J. P., & Tamayo, P. (2015). The Molecular Signatures Database (MSigDB) hallmark gene set collection. Cell systems, 1(6), 417-425. https://doi.org/10.1016/j.cels.2015.12.004
Liberzon, Arthur, et al. "The Molecular Signatures Database (MSigDB) hallmark gene set collection." Cell systems vol. 1,6 (2015): 417-425. doi: https://doi.org/10.1016/j.cels.2015.12.004
Liberzon A, Birger C, Thorvaldsdóttir H, Ghandi M, Mesirov JP, Tamayo P. The Molecular Signatures Database (MSigDB) hallmark gene set collection. Cell Syst. 2015 Dec 23;1(6):417-425. doi: 10.1016/j.cels.2015.12.004. PMID: 26771021; PMCID: PMC4707969.
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Showing 1 to 4 of 4 entries