Table 4

Gene ontology for differentially expressed genes found in NHEK cells

Gene Category

Down (genes)

Up (genes)

Combined list Affy probes

EASE score


mitotic cell cycle

41

4

49

1.96E-14

cell cycle

52

12

76

2.03E-12

M phase

22

1

24

7.73E-09

DNA replication and chromosome cycle

22

1

24

7.73E-09

cell proliferation

56

22

100

0.000000024

nuclear division

20

1

22

7.23E-08

M phase of mitotic cell cycle

19

1

21

0.000000217

DNA replication

19

1

21

0.000000217

S phase of mitotic cell cycle

19

1

21

0.000000217

mitosis

19

1

21

0.000000217

DNA metabolism

29

6

41

0.000000403

DNA dependent DNA replication

13

0

13

0.00000641

cytokinesis

12

0

12

0.0000199

metabolism

100

79

256

0.000126

regulation of cell cycle

26

11

48

0.00137

cell growth and/or maintenance

79

62

202

0.00241

nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism

53

36

124

0.00262

biosynthesis

15

5

24

0.00475

protein metabolism

43

29

101

0.00992

physiological process

132

130

389

0.0103

obsolete biological process

17

7

31

0.0125

macromolecule biosynthesis

11

4

18

0.0267

protein modification

22

14

50

0.0639

cytoplasm organization and biogenesis

12

6

23

0.0693

cell organization and biogenesis

17

13

42

0.211

phosphorus metabolism

16

12

40

0.244

phosphate metabolism

16

12

40

0.244

protein amino acid phosphorylation

12

9

30

0.326

phosphorylation

12

10

32

0.424

macromolecule catabolism

10

8

26

0.435

protein catabolism

10

8

26

0.435

proteolysis and peptidolysis

10

8

26

0.435

cell adhesion

4

16

36

1

cell motility

2

6

14

0.995


Bold: processes significantly affected in Caco-2 pointing to differentiation

Italicized: processes significantly downregulated in NHEK, pointing to differentiation

Cutoff (EASE score < 5.00E-01)

Cutoff (#overlapping genes > 9, larger than

in Caco-2 due to a large initial list size).

Gustafsson et al. BMC Cancer 2005 5:75   doi:10.1186/1471-2407-5-75

Open Data