Extended Data Fig. 6: Overlap of the target gene signatures of different transcription factors in early B-cell development.

a, Overlap analysis of the gene lists consisting of the directly regulated target genes of the different TFs, identified by acute protein degradation in small pre-B cells. Horizontal bars in the UpSet plot indicate the total identified target genes of the different TFs, while vertical bars display the counts of unique or shared target genes across TFs. Combinatory categories with less than 10 genes are not displayed. The percentages refer to the unique target genes relative to the total target genes identified for each TF. The target genes analyzed were defined by a difference in intronic transcripts of a shrunken fold-change of > 1.5, an adjusted P value of < 0.001 and a mean transcript value of > 10 TPM in the 5-Ph-IAA-treated or control small pre-B cells. b, GSEA analysis as described in Fig. 4c except that an FDR threshold of < 0.01 was used. c, Gene set enrichment plots and corresponding normalized enrichment score (NES) displayed in (b) and Fig. 4c. As shown by this example, the E2A activated target gene set, which was identified by a shrunken fold-change of > 1.5 (Extended Data Fig. 5a) upon E2A degradation in pro-B cells, was compared with the shrunken fold change-ranked gene list (x-axis) determined by degradation of the indicated TF in the specified B cell type. The enrichment score (ES) is shown on the y-axis. Gray color indicates results obtained with an FDR of > 0.01.