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Table 3 The most highly represented gene ontology themes in the neurosphere vs. differentiated cells comparison (F-G).

From: Transcriptome analysis in primary neural stem cells using a tag cDNA amplification method

Biological process

no of genes on array

no of DE genes in F-G

enriched in NS

enriched in DC

Fisher Exact

cell adhesion

56

17

6 (35%)

11 (65%)

0.00939

lipid metabolism

71

20

8 (40%)

12 (60%)

0.0123

neurogenesis

35

12

2 (17%)

10 (83%)

0.0101

mitotic cell cycle

30

10

7 (70%)

3 (30%)

0.0225

synaptic transmission

35

11

2 (18%)

9 (82%)

0.0266

development

166

37

8 (22%)

29 (78%)

0.0429

neuromuscular physiol. process

37

11

2 (18%)

9 (82%)

0.0396

transmission of nerve impulse

37

11

2 (18%)

9 (82%)

0.0396

electron transport

38

11

8 (73%)

3 (27%)

0.0476

endocytosis

24

8

2 (25%)

6 (75%)

0.0399

organismal movement

43

12

3 (25%)

9 (75%)

0.0511

siderochrome transport

34

10

4 (40%)

6 (60%)

0.0522

alcohol metabolism

39

11

4 (36%)

7 (64%)

0.0565

neurophysiological process

49

13

3 (23%)

10 (77%)

0.0626

organismal physiological process

86

20

5 (25%)

15 (75%)

0.0842

energy pathways

36

10

7 (70%)

3 (30%)

0.0739

cell-cell signaling

41

11

2 (18%)

9 (82%)

0.0777

Organogenesis

89

20

4 (20%)

16 (80%)

0.112

  1. Analysis is restricted to themes of category biological function. Genes with p < 0.001, calculated by empirical Bayes moderated t-test and false discovery rate adjustment were included in the analysis. Shown is the total number of genes found in the respective theme, as well as the number of those genes that are enriched in neurospheres (NS) and differentiated cells (DC) respectively. Jackknife Fisher's exact probability test was used to identify over-represented themes in the data. Corresponding p-values are listed.