Table 8

Ten most significant KEGG pathways from the gene set enrichment analysis of the genome
KEGG Identifier KEGG Pathway Over-Expressed Gene1 Under-Expressed Genes2 Log Odds Ratio3 FDR P-value4
hsa03010 ribosome 119 16 −2.4779 9.7E-10
hsa00010 glycolysis / gluconeogenesis 57 27 −1.1614 3.6E-04
hsa00190 oxidative phosphorylation 103 39 −0.9392 3.6E-04
hsa05212 pancreatic cancer 54 45 −0.9460 4.7E-04
hsa05130 pathogenic escherichia coli infection  44 41 −1.0575 4.7E-04
hsa00240 pyrimidine metabolism 42 78 −0.8800 5.0E-04
hsa03050 proteasome 33 32 −1.0965 7.2E-04
hsa00280 valine, leucine and isoleucine degradation  20 48 −1.1353 8.5E-04
hsa04662 b cell receptor signaling pathway  34 65 −0.9084 8.5E-04
hsa05223 non-small cell lung cancer 25 52 −0.9922 9.0E-04

1Over-Expressed Genes: number of genes that have a positive association between expression and glioblastoma multiforme survival.

2Under-Expressed Genes: number of genes that have a negative association between expression and glioblastoma multiforme survival.

3Log Odds Ratio: indicates whether the category is more enriched among the genes that have a positive association between expression and survival relative to the enrichment among the genes that have a negative association between expression and glioblastoma survival (positive loge odds ratio) or vice versa (negative loge odds ratio). Extreme values indicate higher difference in the enrichment percentages between the positive and negative association groups meanwhile values close to zero indicate similar enrichment percentages between positive and negative association groups.

4FDR-adjusted P-value: False discovery rate adjusted P-value of the log odds ratio test.

Sadeque et al.

Sadeque et al. BMC Medical Genomics 2012 5:59   doi:10.1186/1755-8794-5-59

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