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Fig. 6 | Genome Biology

Fig. 6

From: An interpretable bimodal neural network characterizes the sequence and preexisting chromatin predictors of induced transcription factor binding

Fig. 6

Brn2, Ebf2, and Onecut2 vary in their relative dependence on preexisting chromatin features. a Bichrom (incorporating preexisting ATAC-seq data) outperforms the sequence-only network at predicting induced Brn2 and Ebf2 binding but performs at par with the sequence-only network at predicting induced Onecut2 binding. b The percentage of Onecut2, Brn2, and Ebf2 sites that are bound in both iAscl1 and iNeurog2 neurons (shared sites), preferentially bound in iNeurog2 (iNeurog2-only) and preferentially bound in iAscl1 neurons (iAscl1-only). c Brn2, Ebf2 and Onecut2 iAscl1 sequence-predicted (SP) sites are more conserved in iNeurog2 neurons compared to chromatin-predicted (CP) sites. MEME-ChIP-determined motif frequency at SP vs. CP sites for d Brn2, e Ebf2, and f Onecut2. For all three TFs, SP sites contain a higher number of cognate motifs. CP and SP sites also display differential secondary motif enrichment

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Genome Biology

ISSN: 1474-760X

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