Table 3

The six most significant linear ICA clusters from the yeast in various stress conditions data (Dataset 3)

Cluster

Number of ORFs

GO and KEGG functional category

Number of ORFs within functional category

p-value (log10)


17

378

Protein biosynthesis (181)

76

-37.3

407

Structural constituent of ribosome (73)

63

-57.8

225

Mitochondrion (286)

137

-77.7

423

Translation (76)

32

-15.5

15

346

Amino acid and derivative metabolism (84)

58

-47.0

379

Oxidoreductase (141)

39

-11.9

423

Metabolism of other amino acids (62)

26

-12.7

1

363

TCA intermediate metabolism (19)

18

-18.9

381

Oxidoreductase (141)

52

-22.1

198

Mitochondrion (286)

77

-22.9

421

Oxidative phosphorylation (137)

35

-24.2

65

377

Protein catabolism (123)

35

-11.1

377

Threonine endopeptidase (30)

20

-15.1

194

26S proteasome (41)

26

-18.2

423

Proteasome (32)

21

-15.5

61

375

Main pathways of carbohydrate metabolism (51)

27

-16.5

395

Transporter (218)

37

-4.8

184

Cytosol (125)

32

-9.1

421

Glycolysis/gluconeogenesis (36)

24

-17.9

75

386

Cell-cell fusion (90)

32

-12.8

390

Transmembrane receptor (14)

6

-3.3

189

External protective structure (66)

16

-4.3


The cluster IDs are shown where cluster Ci,1in Equation 3 is denoted by 2i-1 and a cluster Ci,2 is denoted by 2i. The number of genes in the cluster that have at least one annotation in GO or KEGG are listed, along with the functional category with the smallest p-value among those in each annotation system. Numbers in parentheses show the number of genes within the functional category that are present in the microarray data. Functional categories with p-values higher than 10-3 are discarded, and those with values higher than 10-7 are not considered to be significant. The number of genes shared by the cluster and the functional category is shown with the log10 of the p-values corresponding to each functional category for the cluster.

Lee and Batzoglou Genome Biology 2003 4:R76   doi:10.1186/gb-2003-4-11-r76

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