Table 1

Top 20 LeFE Categories for current versus never-smokers classification

Rank

Category

FDR

1

Electron transporter activity BioCarta

~0

1

Carbohydrate metabolism (GO:0005975)

~0

1

Electron transport BioCarta

~0

1

Glutathione metabolism GenMAPP

~0

1

Pentose Phosphate Pathway BLACK

~0

6

Xenobiotic metabolism (GO:0006805)

0.016

6

O Glycans biosynthesis GenMAPP

0.016

8

PentosePathway BLACK

0.045

9

Protein amino acid O-linked glycosylation (GO:0006493)

0.069

10

Pentose phosphate pathway GenMAPP

0.094

10

Gamma hexachlorocyclohexane degradation GenMAPP

0.094

12

Tyrosine metabolism GenMAPP

0.097

13

Cysteine metabolism (GO:0006534)

0.105

13

G1pPathway BLACK

0.105

13

T cell differentiation (GO:0030217)

0.105

13

Fatty acid metabolism BioCarta

0.105

17

Retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)

0.11

18

Aldehyde metabolism (GO:0006081)

0.11

19

Digestion (GO:0007586)

0.114

19

MAP00051 Fructose and mannose metabolism GenMAPP

0.114

FDR, false discovery rate; GO, Gene Ontology; LeFE, Learner of Functional Enrichment.

Eichler et al. Genome Biology 2007 8:R187   doi:10.1186/gb-2007-8-9-r187