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. 2016 Nov 18;17:938. doi: 10.1186/s12864-016-3288-8

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© The Author(s). 2016

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. 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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Fig. 5 — Motif enrichment analysis. a STAT1 consensus sequence (TTCNNNGAA) enrichment in peak lists obtained at various tag thresholds. b Comparisons of peak lists derived with ChIP-Peak from data published in [45] versus peak lists published by ENCODE. Here, consensus sequence enrichment serves as a proxy for enrichment in true binding sites. Note that a fair comparison is only possible between peak lists of similar size. c Comparative evaluation of three alternative STAT1 binding motif descriptions: (i) consensus sequence TTCNNNGAA, (ii) PWM from JASPAR and (iii) MEME-ChIP-derived PWM from the peak regions identified by ChIP-Peak (tag threshold 100)