Gene set enrichment analysis of microarray data from Pimephales promelas (Rafinesque), a non-mammalian model organism

Table 4 GSEA tests for enrichment of HCC- and hepatitis-associated gene sets

Gene Set Name	Size	ES	NES	NOM p-value
Up-regulated in acute liver treatment
KUROKAWA_5FU_IFN_SENSITIVE_VS_RESISTANT_DN	25	0.585	1.642	0.025
WONG_IFNA_HCC_RESISTANT_VS_SENSITIVE_UP	10	0.507	1.407	0.046
Down-regulated in acute liver treatment
HBX_HEP_UP	12	-0.540	-1.460	0.038
Up-regulated in chronic liver treatment
HCC_SURVIVAL_GOOD_VS_POOR_DN	112	0.452	1.549	0.000
Down-regulated in chronic liver treatment
None

Results for gene sets representing Hepatocellular carcinoma (HCC) and hepatitis, tested for enrichment by GSEA following methylmercury treatment. Here, we test whether liver-associated sets are enriched following methylmercury exposure. Size refers to the number of genes in the set; ES and NES are the enrichment scores and normalized enrichment scores (respectively) for the set; NOM p-value is the nominal p-value for the NES. Descriptions of each set (and lists of constituent genes) can be found by searching for set names at the MSigDB [8].

ISSN: 1471-2164