Fig. 2

Differences in open chromatin and transcription-factor targeting between IDH-A and IDH-O. A Differential test for motif frequency in the scATAC-seq data between IDH-A and IDH-O neoplastic cells via ChromVAR. B Transcription-factor motif frequencies in scATAC-seq data for selected motifs that are differentially enriched between IDH-A and IDH-O neoplastic cells at q<0.05 (Table 3), assessed via ChromVAR, represented as standardized deviances from expected (Methods), and separated by cluster. Error bars represent standard error. C Differential peaks from scATAC-seq data called between IDH-A and IDH-O neoplastic cells via MACS at p<0.05. Peaks are represented as a heatmap (bottom) and a moving average (top) of reads per 10 bp, in a 2 Kbp window around the transposase cut site. D Over-represented transcription-factor motifs in differential peaks from scATAC-seq data, comparing IDH-A and IDH-O neoplastic cells. Over-representation compared to a background distribution was performed via HOMER, only motifs with q<0.05 are shown