CAGEd-oPOSSUM: motif enrichment analysis from CAGE-derived TSSs.

ABSTRACT:

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With the emergence of large-scale Cap Analysis of Gene Expression (CAGE) datasets from individual labs and the FANTOM consortium, one can now analyze the cis-regulatory regions associated with gene transcription at an unprecedented level of refinement. By coupling transcription factor binding site (TFBS) enrichment analysis with CAGE-derived genomic regions, CAGEd-oPOSSUM can identify TFs that act as key regulators of genes involved in specific mammalian cell and tissue types. The webtool allows for the analysis of CAGE-derived transcription start sites (TSSs) either provided by the user or selected from ∼1300 mammalian samples from the FANTOM5 project with pre-computed TFBS predicted with JASPAR TF binding profiles. The tool helps power insights into the regulation of g

SUBMITTER: Arenillas DJ 

PROVIDER: S-EPMC5018375 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature