Figure S1, S2, S3, S4, S5, S6, S7, S8, S9 from Bivalent Chromatin Domains in Glioblastoma Reveal a Subtype-Specific Signature of Glioma Stem Cells

Figure S1: Copy number alterations in GBM tumor genomes. Figure S2: Clustering of primary GBM tumors relative to GBM-derived cell lines. Figure S3: Gene expression over all 21 chromatin states in GBM tumors. Figure S4: Methylation over all identified chromatin states, over the 11 tumors analyzed in this study. Figure S5: 5hmC signal over enhancers, enhancer distance to genes, average expression of enhancer-associated genes by tumor. Figure S6: Sequence motifs in enhancers. Figure S7: Gene expression and chromatin signal for frequently bivalent domains and associated genes. Figure S8: Histone mark profiles over the HOXB locus, comparing GBM data with Roadmap Epigenomics brain data. Figure S9: Bivalent regions in T98G cells and their overlap with bivalent regions identified in at least 8 tumors.