Fig. 6.

Genomic similarity of the GC lines to the TCGA GBM tissue samples. Genomic copy number variation analysis in (A) the 48 GC lines, and (B) 509 GBM samples from the TCGA tumor tissue cohort. (C) CNA variation in the GC lines of different subtypes shows similar trends as the TCGA data; the heat map shows amplifications (red) and deletions (blue) for a selected set of regions (rows) previously reported (Brennan et al., 2013). Significant difference (Chi-squared p-value, Holm correction) in alteration frequency was found for 3q26.33 (containing the SOX2 locus, p < 0.01) and 17q11.2 (containing NF1, p < 0.001) which was amplified at a higher frequency in our GC lines compared to TCGA.