Table 1

Gene set enrichment analysis (GSEA)
Group Gene set Size ES NES p value FDR
Enriched in CDH
1 nucleosome 14 0.76 2.34 0.00 0.84
2 structural constituent of eye lens 12 0.72 2.16 0.00 6.16
3 inner ear morphogenesis 21 0.61 2.15 0.00 4.38
4 nucleosome assembly 21 0.59 2.03 0.00 11.71
5 chromatin assembly 21 0.59 2.03 0.00 9.36
6 intramolecular oxidoreductase activity 16 0.61 1.96 0.01 14.74
7 DNA-dependent DNA replication 19 0.53 1.85 0.00 31.63
8 DNA packaging 24 0.50 1.82 0.00 33.31
9 methylation 43 0.41 1.78 0.00 40.09
10 methyltransferase activity 43 0.41 1.78 0.00 36.08
Enriched in MDH
1 proteasomal ubiquitin-dependent protein catabolic process 60 −0.51 −2.01 0.00 12.63
2 proteasomal protein catabolic process 60 −0.51 −2.01 0.00 6.32
3 ubiquitin-protein ligase activity 71 −0.49 −1.93 0.00 14.41
4 protein ubiquitination 94 −0.46 −1.92 0.00 13.14
5 regulation of protein catabolic process 10 −0.75 −1.92 0.00 10.60
6 protein modification by small protein conjugation 101 −0.45 −1.90 0.00 11.47
7 ubiquitin thiolesterase activity 33 −0.54 −1.88 0.00 13.19
8 thiolester hydrolase activity 42 −0.51 −1.87 0.00 12.49
9 protein modification by small protein conjugation or removal 123 −0.43 −1.87 0.00 11.58
10 membrane raft 65 −0.47 −1.86 0.00 11.47
11 cellular protein catabolic process 129 −0.42 −1.86 0.00 10.68
12 proteolysis involved in cellular protein catabolic process 129 −0.42 −1.86 0.00 9.79

Direct comparison of genes uniquely expressed in cod larvae in the CDH and MDH exposure groups. Size: number of genes in each gene set. ES = enrichment score. NES = normalized enrichment score. Nominal p value. FDR = false discovery rate.

Olsvik et al.

Olsvik et al. BMC Genomics 2012 13:702   doi:10.1186/1471-2164-13-702

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