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Table 2 Excerpt of CLASSIFI results for six gene clusters giving significant probabilities

From: Components of the antigen processing and presentation pathway revealed by gene expression microarray analysis following B cell antigen receptor (BCR) stimulation

GO ID

f

n

prob

GO type

GO term

Cluster ID

GO:0005634

254

64

8.71E-06

CC

nucleus

1

GO:0005635

13

9

1.66E-05

CC

nuclear membrane

1

GO:0006412

94

30

2.75E-05

BP

protein biosynthesis

1

GO:0009059

94

30

2.75E-05

BP

macromolecule biosynthesis

1

GO:0003743

20

10

2.68E-04

MF

translation initiation factor activity

1

GO:0016655

14

11

4.94E-08

MF

oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor

6

GO:0008137

14

11

4.94E-08

MF

NADH dehydrogenase (ubiquinone) activity

6

GO:0015081

14

11

4.94E-08

MF

sodium ion transporter activity

6

GO:0016651

16

11

4.61E-07

MF

oxidoreductase activity, acting on NADH or NADPH

6

GO:0046873

16

11

4.61E-07

MF

metal ion transporter activity

6

GO:0005773

12

4

1.00E-07

CC

vacuole

7

GO:0016787

163

6

2.52E-05

MF

hydrolase activity

7

GO:0005624

15

3

2.84E-05

CC

membrane fraction

7

GO:0000267

18

3

5.05E-05

CC

cell fraction

7

GO:0015991

3

2

5.31E-05

BP

ATP hydrolysis coupled proton transport

7

GO:0003779

15

9

6.30E-06

MF

actin binding

8

GO:0008092

22

9

3.08E-04

MF

cytoskeletal protein binding

8

GO:0003785

6

4

1.88E-03

MF

actin monomer binding

8

GO:0006357

10

5

2.58E-03

BP

regulation of transcription from Pol II promoter

8

GO:0006355

79

17

4.85E-03

BP

regulation of transcription, DNA-dependent

8

GO:0005576

156

33

7.28E-09

CC

extracellular

14

GO:0005578

5

4

1.33E-04

CC

extracellular matrix

14

GO:0004871

50

11

7.39E-04

MF

signal transducer activity

14

GO:0004888

7

4

8.29E-04

MF

transmembrane receptor activity

14

GO:0007166

25

7

1.59E-03

BP

cell surface receptor linked signal transduction

14

GO:0015672

10

7

1.38E-06

BP

monovalent inorganic cation transport

18

GO:0006811

23

10

2.65E-06

BP

ion transport

18

GO:0005215

122

24

9.10E-06

MF

transporter activity

18

GO:0006812

18

8

2.33E-05

BP

cation transport

18

GO:0006754

4

4

3.36E-05

BP

ATP biosynthesis

18

  1. The five GO IDs giving the lowest probability are listed for each of six gene clusters giving significant probabilities in Table 1. GO ID = a unique Gene Ontology identifier that corresponds to a defined molecular function, biological process, or cellular component (GO name). f = number of probes with the associated GO ID in the data set, n = number of probes with the associated GO ID in the gene cluster. prob = the probability that the GO ID co-cluster pattern has occurred by chance.
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BMC Bioinformatics

ISSN: 1471-2105

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