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Figure 4 | Molecular Cancer

Figure 4

From: Anaplastic oligodendrogliomas with 1p19q codeletion have a proneural gene expression profile

Figure 4

GSEA Enrichment Score curves. Gene set enrichment analysis (GSEA) was performed with 6 different gene sets obtained from the studies of Phillips et al. and Freije et al. Phillips' study gene sets: A: Proneural gene set (n = 220 genes), B: Proliferative gene set (n = 148 genes), C: Mesenchymal gene set (n = 126 genes). Freije's study gene sets: D: HC1A neurogenesis related gene set (n = 73), E: HC2A proliferation related gene set (n = 66 genes), F: HC2B extracellular matrix related gene set (n = 239 genes) [5, 28]. "Signal-to-Noise" ratio (SNR) statistic was used to rank the genes according to their correlation with either the 1p19q codeletion phenotype (red) or EGFR amplification phenotype (blue). The graph on the bottom of each panel represents the ranked, ordered, non-redundant list of genes. Genes on the far left (red) correlated the most with 1p19q codeleted samples, and genes on the far right (blue) correlated the most with EGFR amplified samples. On each panel, the vertical black lines indicate the position of each of the genes of the studied gene set in the ordered, non-redundant data set. The green curve corresponds to the ES (enrichment score) curve, which is the running sum of the weighted enrichment score obtained from GSEA software. A and D show that gliomas with 1p19q codeletion were significantly enriched in the proneural and neurogenesis related (HC1A) gene sets. B, C, D and E show that gliomas with EGFR amplification were significantly enriched in the proliferation/HC2A and mesenchymal/HC2B gene sets.

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