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Table 2 Significantly enriched classes arising both in genes higher in A549 cell cultures over tumors and in genes higher in U118 cell cultures over tumors (p < 0.05 in both sets)

From: Profiling of pathway-specific changes in gene expression following growth of human cancer cell lines transplanted into mice

Category

Term

Gene count in A549 set of 223

Gene count in U118 set of 256

Gene count in entire set of 5,682

p-value A549 set

p-value U118 set

GO term annotation (0.95 terms expected, found 46)

Biological process

Alcohol metabolism

10

15

110

1.07E-02

1.06E-04

Biological process

Aromatic compound metabolism

7

6

23

1.87E-05

4.16E-04

Biological process

Biosynthesis

31

27

330

3.88E-06

1.69E-03

Biological process

Cell cycle

31

33

327

3.20E-06

8.11E-06

Biological process

Cell proliferation

36

39

535

7.98E-04

1.53E-03

Biological process

Cytokinesis

8

6

39

1.06E-04

7.36E-03

Biological process

DNA metabolism

16

12

120

1.52E-05

7.46E-03

Biological process

DNA replication

13

10

81

1.30E-05

3.22E-03

Biological process

G1/S transition of mitotic cell cycle

5

7

39

1.73E-02

1.55E-03

Biological process

Metabolism

108

134

2278

6.12E-03

3.34E-05

Biological process

Mitotic cell cycle

9

10

54

2.14E-04

1.20E-04

Biological process

Nucleotide biosynthesis

10

5

31

1.52E-07

1.16E-02

Biological process

Regulation of CDK activity

5

6

23

1.68E-03

4.16E-04

Biological process

Tricarboxylic acid cycle

3

5

12

1.01E-02

1.09E-04

Molecular function

ATP binding activity

29

33

425

2.18E-03

1.28E-03

Molecular function

Cyclin-dependent protein kinase activity

6

8

25

3.23E-04

8.44E-06

Molecular function

Enzyme activity

90

109

1466

8.76E-07

1.70E-09

Molecular function

Ligase activity

14

11

72

5.40E-07

3.28E-04

Molecular function

Lyase activity

8

8

75

8.69E-03

1.88E-02

Molecular function

Nucleotide binding activity

40

42

564

1.28E-04

6.40E-04

MeSH term association (2.2 terms expected, found 37)

Anatomy

Intracellular membranes

21

30

344

2.79E-02

3.20E-04

Anatomy

Mitochondria

38

52

607

2.17E-03

2.46E-06

Biological sciences

Active transport, Cell nucleus

23

23

329

4.68E-03

2.26E-02

Biological sciences

Cell cycle

62

66

980

4.19E-05

2.82E-04

Biological sciences

DNA replication

30

33

440

1.84E-03

2.28E-03

Biological sciences

Genes, lethal

17

16

211

3.61E-03

2.78E-02

Biological sciences

Mitosis

28

37

484

2.30E-02

8.57E-04

Biological sciences

Mutagenesis

52

55

940

4.84E-03

2.07E-02

Biological sciences

Oxidative stress

30

36

454

2.98E-03

5.13E-04

Biological sciences

S phase

21

22

272

2.12E-03

5.18E-03

Chemicals and drugs

Acetyl coenzyme A

4

4

24

1.32E-02

2.10E-02

Chemicals and drugs

Adenosinetriphosphatase

30

36

416

7.50E-04

9.02E-05

Chemicals and drugs

Antineoplastic agents

49

55

897

8.09E-03

8.39E-03

Chemicals and drugs

Cyclin B

10

15

101

5.96E-03

3.87E-05

Chemicals and drugs

Cyclin-dependent kinases

21

30

336

2.22E-02

2.12E-04

Chemicals and drugs

Cysteine endopeptidases

26

29

418

1.21E-02

1.22E-02

Chemicals and drugs

Multienzyme complexes

35

35

512

7.14E-04

7.58E-03

Chemicals and drugs

Phosphoglucomutase

5

6

30

5.68E-03

1.88E-03

Chemicals and drugs

RNA nucleotidyltransferases

5

5

33

8.60E-03

1.51E-02

Diseases

Carcinoma in situ

6

7

55

1.99E-02

1.11E-02