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. 2014 Apr 23;15:304. doi: 10.1186/1471-2164-15-304

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Copyright © 2014 Corrado et al.; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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PTRcombiner workflow scheme. PTRcombiner is composed of two main methodological parts. The first, called “Mining combinatorial features” (orange panel), identifies groups (clusters) of regulatory elements (trans-factors) that act on common mRNAs. The second, called “Analyzing combinatorial features” (blue panels), explores the identified clusters to evaluate their biological characteristics in terms of commonly regulated mRNAs, Gene Ontology enrichments, and compatibility of binding sites among trans-factors belonging to the same cluster.