Table 2

Functional analysis of gene expression differences between autopsy and resection samples

GO ID

Term

Expressed genes

Significant differences*

Change p value

Conservation p value


GO:0006412

Protein biosynthesis

462

101 (37/64)

0.001

0.999

GO:0006512

Ubiquitin cycle

473

119 (86/33)

0.000

1.000

GO:0016567

Protein ubiquitination

256

60 (41/19)

0.002

0.999

GO:0006511

Ubiquitin-dependent protein catabolism

104

36 (23/13)

0.000

1.000

GO:0006396

RNA processing

341

118 (64/54)

0.011

0.995

GO:0006397

mRNA processing

217

74 (44/30)

0.002

0.999

GO:0008380

RNA splicing

183

67 (39/28)

0.000

1.000

GO:0006281

DNA repair

168

40 (23/17)

0.009

0.995

GO:0000398

Nuclear mRNA splicing, via spliceosome

155

54 (30/24)

0.000

1.000

GO:0006364

rRNA processing

32

16 (3/13)

0.000

1.000

GO:0006996

Organelle organization and biogenesis

367

83 (30/53)

0.048

0.964

GO:0006886

Intracellular protein transport

263

62 (32/30)

0.002

0.999

GO:0008624

Induction of apoptosis by extracellular signals

28

13 (2/11)

0.000

1.000

GO:0006120

Electron transport, NADH to ubiquinone

24

10 (3/7)

0.003

0.999

GO:0048247

Lymphocyte chemotaxis

3

3 (0/3)

0.004

1.000

GO:0007242

Intracellular signaling cascade

879

105

0.989

0.016

GO:0007186

GPCR protein signaling pathway

448

39

1.000

0.000

GO:0007267

Cell-cell signaling

417

39

0.998

0.003

GO:0007243

Protein kinase cascade

231

24

0.997

0.005

GO:0045860

Positive regulation of protein kinase activity

41

1

0.999

0.006

GO:0007268

Synaptic transmission

203

18

0.999

0.001

GO:0007187

G-protein signaling (cyclic nucleotide second messenger)

73

4

0.999

0.004

GO:0050896

Response to stimulus

1,326

179

0.975

0.035

GO:0009605

Response to external stimulus

781

90

0.972

0.037

GO:0009617

Response to bacteria

37

0

1.000

0.001

GO:0007601

Visual perception

126

9

0.999

0.002

GO:0007606

Sensory perception of chemical stimulus

55

2

0.999

0.003

GO:0007275

Development

1,412

174

0.992

0.011

GO:0009887

Organogenesis

770

89

0.997

0.004

GO:0007417

Central nervous system development

92

6

0.999

0.004

GO:0008544

Epidermis development

39

1

0.999

0.008

GO:0050875

Cellular physiological process

3,372

515

1.000

0.000

GO:0050874

Organismal physiological process

1,200

138

0.997

0.004

GO:0006813

Potassium ion transport

139

3

1.000

0.000

GO:0030003

Cation homeostasis

52

1

1.000

0.001


*Numbers in parenthesis correspond to the number of up- and down-regulated genes in the autopsy samples. Bold font indicates Gene Ontology (GO) groups with significant excess of up- or down-regulated genes (see Materials and methods).

Franz et al. Genome Biology 2005 6:R112   doi:10.1186/gb-2005-6-13-r112

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