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. 2011 Sep 12;6(9):e24576. doi: 10.1371/journal.pone.0024576

Figure 7. Modeling TFBSs using ChIP-chip/seq data.

Figure 7

(a) A total of six selected motif tools were applied to seven ChIP-chip/seq datasets from humans and mice. The programs were either executed locally (AMD, Amadeus, DME, SPACER and Weeder) or via the Web server (Trawler). The expected motifs were retrieved from the TRANSFAC database or the literature (indicated in the reference row). The three top-scoring motifs were compared to the expected motifs by CompareACE and the most similar match is shown. An empty space indicates that no result was returned from the Trawler Web server or from Weeder. The generation of motif logos is illustrated in Figure 5. (b) Motif-level sensitivity (mSN) and specificity (mSP) of motif tools tested on ChIP-chip/seq datasets.