Table 1

Functional annotation of defined patient subgroups.

M

N1

N2


category

n

p

category

n

p

category

n

p


DAVID IDs


258

383

238


Biological processes


230

344

203

DNA replication

13

5E-3

endodome transport

7

1E-3

development

38

9E-3

taxis

9

7E-3

vacuole organization and biogenesis

7

9E-3

reactive oxygen species metabolism

6

1E-2

carbohydrate metabolism

25

9E-3

response to chemical stimuli

23

1E-2

response to oxidatïve stress

5

3E-2

negative regulation of biological processes

26

1E-2

regulation of enzyme activity

20

3E-2

dephosphorylation

6

2E-2

nucleic acid metabolism

69

2E-2

vesicle mediated transport

18

3E-2

intracellular protein transport

18

3E-2


Molecular function


238

347

211

DNA binding

39

2E-2

protein dimerization activity

14

2E-2

protein domain specific binding

6

3E-2

protein dimerization activity

10

5E-2

hydrolase activity on glycosyl bonds

12

5E-2

GTPase activity

7

5E-2

nucleic acid binding

54

5E-2


Cellular component


285

342

195

chromosome

11

2E-3

vacuole

44

2E-8

chromosome

8

4E-2

chromatin

7

9E-3

lytic vacuole

39

2E-7

nucleus

70

6E-3

lysosome

39

1E-7

lytic vacuole

17

4E-2

lytic vacuole

20

2E-3

extracellular region

32

2E-2

lysosome

17

4E-2

lysosome

20

2E-3

endosome

8

4E-2

non-membrane bound organelle

28

4E-2


KEGG pathway


122

185

125

N-glycan degradation

5

2E-2

antigen processing

9

2E-3

Toll-like receptor signaling

10

2E-2

hematopoetic cell lineage

8

3E-2

glycosphingolipid metabolism

7

2E-2

glycosylaminoglycan degradation

6

2E-2

hematopoetic cell lineage

10

4E-2


Biocarta pathway


68

92

57

cyclins and cell cycle regulation

9

2E-2

role of ERB2 in signal transduction

9

5E-3

activation of Src

4

3E-2

IL 3 signaling pathway

7

1E-2

phospholipid signaling intermediates

5

4E-2

IL 6 signaling pathway

8

1E-2

Erk and PI-3 kinase pathway

7

2E-2

signaling pathway from G-protein families

7

3E-2


"n", number of genes involved in the corresponding annotation category; p, modified Fisher exact p-value of the gene enrichment for each category.

Čížková et al. BMC Genomics 2008 9:38   doi:10.1186/1471-2164-9-38

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