Fig. 2: GLK targets identified by ChIP-seq. | Nature Communications

Fig. 2: GLK targets identified by ChIP-seq.

From: Limited conservation in cross-species comparison of GLK transcription factor binding suggested wide-spread cistrome divergence

Fig. 2

a Genome browser tracks showing GLK1 and GLK2 ChIP-seq peaks, as well as open chromatin regions (ATAC-seq) in the photosynthesis gene loci. The motif enrichment results for each GLK are shown below. b AtGLK1 bag-of-k-mers machine learning model ROC curve. c Top 10 scoring k-mers in the AtGLK1 model. d Heatmap and average signal plot showing the tomato epigenome features near the GLK binding sites. Clustering is performed using the leaf GLK1 ChIP-seq signal. From left to right, GLK1 ChIP-seq in leaf, GLK2 ChIP-seq in leaf, GLK1 ChIP-seq in fruit, GLK2 ChIP-seq in fruit, chromatin accessibility DNase-seq signal, H3K4me3, H3K27ac, DNA methylation at CG, CHG and CHH sites. Regions 2 kb up and downstream of the gene transcriptional start sites are shown. Source data are provided as a Source Data file.

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