Table 2

Functional annotations enriched among genes upregulated* in BMP2+ cells compared to control cells in seven-day-old EBs and undifferentiated BMP2 ES cells

Category

Term

Count

p value


GOTERM_MF_5

Zinc ion binding

46

5.6E-5

GOTERM_CC_5

Nucleus

95

3.3E-4

GOTERM_BP_5

Cellular protein metabolism

66

3.3E-4

GOTERM_BP_5

Protein catabolism

10

4.9E-3

GOTERM_BP_5

Apoptosis

17

5.9E-3

GOTERM_BP_5

Biopolymer modification

38

6.0E-3

GOTERM_BP_5

Biopolymer catabolism

10

6.9E-3

GOTERM_BP_5

Positive regulation of programmed cell death

8

9.1E-3

GOTERM_MF_5

ATP binding

30

1.4E-2

GOTERM_BP_5

Response to unfolded protein

5

1.5E-2

GOTERM_BP_5

Transcription

47

1.5E-2

GOTERM_BP_5

Regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism

45

2.7E-2

GOTERM_BP_5

Regulation of programmed cell death

11

3.8E-2

GOTERM_BP_5

Regulation of progression through cell cycle

11

5.1E-2

GOTERM_BP_5

Protein kinase cascade

8

5.3E-2

GOTERM_BP_5

Regulation of protein kinase activity

5

5.6E-2

GOTERM_BP_5

Small GTPase mediated signal transduction

9

5.6E-2

GOTERM_BP_5

Post replication repair

2

6.2E-2

GOTERM_MF_5

Ubiquitin-protein ligase activity

8

6.2E-2

GOTERM_BP_5

Regulation of apoptosis

10

7.4E-2

GOTERM_BP_5

Protein transport

16

7.5E-2

GOTERM_MF_5

Protein kinase activity

15

8.3E-2

KEGG_REACTION

Phytoceramide+h2o<=>fattyacid+phytosphingosine

3

8.7E-2

GOTERM_CC_5

Lytic vacuole

6

8.8E-2

KEGG_PATHWAY

MAPK signaling pathway

9

9.5E-2


*Change fold >2, Student's t-test p value < 0.01. Count indicates the number of genes in the functional annotation category. The p value is from gene enrichment in annotation terms calculated by the Fisher's exact t-test.

Doss et al. Genome Biology 2007 8:R184   doi:10.1186/gb-2007-8-9-r184

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