From sets to graphs: towards a realistic enrichment analysis of transcriptomic systems | Zendy

Ludwig Geistlinger | Zendy; Gergely Csaba | Zendy; Robert Küffner | Zendy; Nicola Mulder | Zendy; Ralf Zimmer | Zendy

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From sets to graphs: towards a realistic enrichment analysis of transcriptomic systems

Author(s) -

Ludwig Geistlinger,

Gergely Csaba,

Robert Küffner,

Nicola Mulder,

Ralf Zimmer

Publication year - 2011

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btr228

Subject(s) - set (abstract data type) , gene expression , gene , computational biology , biology , pairwise comparison , transcriptome , gene expression profiling , regulation of gene expression , expression (computer science) , concordance , consistency (knowledge bases) , correlation , gene regulatory network , genetics , computer science , mathematics , artificial intelligence , geometry , programming language

Current gene set enrichment approaches do not take interactions and associations between set members into account. Mutual activation and inhibition causing positive and negative correlation among set members are thus neglected. As a consequence, inconsistent regulations and contextless expression changes are reported and, thus, the biological interpretation of the result is impeded.

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