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oPOSSUM-3: advanced analysis of regulatory motif over-representation across genes or ChIP-Seq datasets.

G3 (Bethesda, Md.) | Sep 13, 2012

oPOSSUM-3 is a web-accessible software system for identification of over-represented transcription factor binding sites (TFBS) and TFBS families in either DNA sequences of co-expressed genes or sequences generated from high-throughput methods, such as ChIP-Seq. Validation of the system with known sets of co-regulated genes and published ChIP-Seq data demonstrates the capacity for oPOSSUM-3 to identify mediating transcription factors (TF) for co-regulated genes or co-recovered sequences. oPOSSUM-3 is available at http://opossum.cisreg.ca.

Pubmed ID: 22973536 RIS Download

Mesh terms: Animals | Base Composition | Binding Sites | Chromatin Immunoprecipitation | Cilia | Computational Biology | High-Throughput Nucleotide Sequencing | Humans | Internet | Muscle, Skeletal | Nematoda | Nucleotide Motifs | Regulatory Sequences, Nucleic Acid | Software | Transcription Factors

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oPOSSUM

A web-based system for the detection of over-represented conserved transcription factor binding sites and binding site combinations in sets of genes or sequences.

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