Extended Data Fig. 6: Identification of candidate TFs. | Nature Immunology

Extended Data Fig. 6: Identification of candidate TFs.

From: Bcl-6 is the nexus transcription factor of T follicular helper cells via repressor-of-repressor circuits

Extended Data Fig. 6

Related to Fig. 6 a, Heatmap plots representing the frequencies of the most enriched TF motifs in regions in decreased accessibility (relatively less open in first group than second group, DEseq2 raw p-val < 0.05). Scale, motif frequencies (%). Related to Fig. 6b. b, Motif analysis of the center of TF footprint (green bar) in Fig. 6c and Extended Data Fig. 6e from ATAC–seq reads. c, Genome-browser tracks depict ATAC–seq chromatin accessibility and TF occupancy at Icos and Cd200 loci. Peak calls indicated below each track. ** indicates DEseq2 raw p-val ≤ 0.01 in comparison between Bcl6f/fPrdm1f/f CreCD4 TFH-like and Prdm1f/f CreCD4 TFH. d, Gene expression of Klf genes from RNA-seq data of LCMVArm infected mice or KLH-gp61 immunized mice. e, TF footprints derived from ATAC–seq reads over representative TF motifs within accessible ATAC–seq regions. f, Heatmap plots of relative PageRank scores. Scale, row z-score.

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