Comparing functional annotation analyses with Catmap
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* Corresponding author: Morten Krogh mkrogh@thep.lu.se
BMC Bioinformatics 2004, 5:193 doi:10.1186/1471-2105-5-193
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BioMed Central: 9 citations
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Methodology article
Generation of Gene Ontology benchmark datasets with various types of positive signal Petri Törönen, Petri Pehkonen, Liisa Holm BMC Bioinformatics 2009, 10:319 (7 October 2009) |
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Research article
SuperSAGE: the drought stress-responsive transcriptome of chickpea roots Carlos Molina, Björn Rotter, Ralf Horres, Sripada M Udupa, Bert Besser, Luis Bellarmino, Michael Baum, Hideo Matsumura, Ryohei Terauchi, Günter Kahl, Peter Winter BMC Genomics 2008, 9:553 (24 November 2008) |
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Research article
Emma Niméus-Malmström, Morten Krogh, Per Malmström, Carina Strand, Irma Fredriksson, Per Karlsson, Bo Nordenskjöld, Olle Stål, Görel Östberg, Carsten Peterson, Mårten Fernö Breast Cancer Research 2008, 10:R34 (22 April 2008) |
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Methodology article
Antonio Marco, Ignacio Marín BMC Bioinformatics 2007, 8:442 (15 November 2007) |
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Research
Evolutionary conservation of regulated longevity assurance mechanisms Joshua J McElwee, Eugene Schuster, Eric Blanc, Matthew D Piper, James H Thomas, Dhaval S Patel, Colin Selman, Dominic J Withers, Janet M Thornton, Linda Partridge, David Gems Genome Biology 2007, 8:R132 (5 July 2007) Short abstract: A multi-level cross-species comparative analysis of gene-expression changes accompanying increased longevity in mutant nematodes, fruit flies and mice with reduced insulin/IGF-1 signaling revealed candidate conserved mechanisms. |
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Method
Yingchun Liu, Markus Ringnér Genome Biology 2007, 8:R77 (11 May 2007) A strategy for identifying cell signaling pathways whose deregulation result in an observed expression signature is presented. |
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Method
Björn Nilsson, Petra Håkansson, Mikael Johansson, Sven Nelander, Thoas Fioretos Genome Biology 2007, 8:R74 (8 May 2007) New ontological analysis methods are described for microarray data interpretation that, unlike existing approaches, are threshold-free and statistically powerful. |
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Software
FUNC: a package for detecting significant associations between gene sets and ontological annotations Kay Prüfer, Bjoern Muetzel, Hong-Hai Do, Gunter Weiss, Philipp Khaitovich, Erhard Rahm, Svante Pääbo, Michael Lachmann, Wolfgang Enard BMC Bioinformatics 2007, 8:41 (6 February 2007) |
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Software
ErmineJ: Tool for functional analysis of gene expression data sets Homin K Lee, William Braynen, Kiran Keshav, Paul Pavlidis BMC Bioinformatics 2005, 6:269 (9 November 2005) The ErmineJ software tool implements several methods for analyzing functional relevance in microarray data, with a graphical interface desgined for biologists who are not informatics experts.
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