BMC Bioinformatics

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A general modular framework for gene set enrichment analysis

Marit Ackermann and Korbinian Strimmer*

BMC Bioinformatics 2009, 10:47 doi:10.1186/1471-2105-10-47

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BioMed Central: 10 citations

Methodology article   Open Access Highly Accessed

Assessing statistical significance in causal graphs

Leonid Chindelevitch, Po-Ru Loh, Ahmed Enayetallah, Bonnie Berger, Daniel Ziemek BMC Bioinformatics 2012, 13:35 (20 February 2012)

Software   Open Access Highly Accessed

graphite - a Bioconductor package to convert pathway topology to gene network

Gabriele Sales, Enrica Calura, Duccio Cavalieri, Chiara Romualdi BMC Bioinformatics 2012, 13:20 (31 January 2012)

Research   Open Access Highly Accessed

QTL/microarray approach using pathway information

Hirokazu Matsuda, Yukio Taniguchi, Hiroaki Iwaisaki Algorithms for Molecular Biology 2012, 7:1 (15 January 2012)

Research article   Open Access

Normalizing for individual cell population context in the analysis of high-content cellular screens

Bettina Knapp, Ilka Rebhan, Anil Kumar, Petr Matula, Narsis A Kiani, Marco Binder, Holger Erfle, Karl Rohr, Roland Eils, Ralf Bartenschlager, Lars Kaderali BMC Bioinformatics 2011, 12:485 (20 December 2011)

Research article   Open Access Highly Accessed

Integrative set enrichment testing for multiple omics platforms

Laila M Poisson, Jeremy M Taylor, Debashis Ghosh BMC Bioinformatics 2011, 12:459 (25 November 2011)

Method   Open Access Highly Accessed

Integrating diverse genomic data using gene sets

Svitlana Tyekucheva, Luigi Marchionni, Rachel Karchin, Giovanni Parmigiani Genome Biology 2011, 12:R105 (21 October 2011)

A method for integrating multiple genomic data types for the identification of enriched gene sets

Method   Open Access Highly Accessed

Identification of functional modules that correlate with phenotypic difference: the influence of network topology

Jui-Hung Hung, Troy W Whitfield, Tun-Hsiang Yang, Zhenjun Hu, Zhiping Weng, Charles DeLisi Genome Biology 2010, 11:R23 (26 February 2010)

A gene set enrichment analysis method for including network topology in the identification of genes involved in phenotypic alterations is described. Classifications: Genome studies, Methods

Methodology article   Open Access Highly Accessed

Detection of gene pathways with predictive power for breast cancer prognosis

Shuangge Ma, Michael R Kosorok BMC Bioinformatics 2010, 11:1 (1 January 2010)

Research article   Open Access

Quantitative comparison of microarray experiments with published leukemia related gene expression signatures

Hans-Ulrich Klein, Christian Ruckert, Alexander Kohlmann, Lars Bullinger, Christian Thiede, Torsten Haferlach, Martin Dugas BMC Bioinformatics 2009, 10:422 (15 December 2009)

Research article   Open Access

Robust extraction of functional signals from gene set analysis using a generalized threshold free scoring function

Petri Törönen, Pauli J Ojala, Pekka Marttinen, Liisa Holm BMC Bioinformatics 2009, 10:307 (23 September 2009)