Table 11

Gene Ontology categories enriched among the genes associated with progression-free survival

Gene Ontology

Level

Term

P-value

FDR Adjusted P-value

Number of genes

Genes

Biological process

3

cell cycle (GO:0007049)

3.89E-06

2.96E-04

11

Hras, Ppp1r15a, App, Calm2, Atf5, Pten, E2f3, Wee1, Tp53, Ccnd1, Nras

death (GO:0016265)

3.18E-04

1.21E-02

9²

App, Raf1, Atf5, Pten, Fadd, Hspa1a/Hspa1b, Tp53, Ppp1r15a

response to biotic stimulus (GO:0009607)

4.11E-03

5.13E-02

6²

Fadd, Hspa1a/Hspa1b, Clec2b, Ccnd1, Ifngr1

response to abiotic stimulus (GO:0009628)

8.17E-03

6.90E-02

6²

Fadd, Hspa1a/Hspa1b, Clec2b, Ccnd1, Ifngr1

4

cell cycle process (GO:0022402)

4.26E-06

9.16E-04

10

App, Atf5, Pten, E2f3, Wee1, Tp53, Ccnd1, Nras, Hras, Ppp1r15a

5

regulation of cell cycle (GO:0051726)

2.90E-07

1.22E-04

10

Wee1, Tp53, Ccnd1, App, Nras, Hras, Ppp1r15a, Atf5, Pten, E2f3

6

regulation of progression through cell cycle (GO:0000074)

1.47E-07

9.24E-05

10

Tp53, Ccnd1, Nras, Hras, Ppp1r15a, App, Atf5, Pten, E2f3, Wee1

cell death (GO:0008219)

2.13E-04

6.18E-02

9²

Ppp1r15a, App, Raf1, Atf5, Pten, Fadd, Hspa1a/Hspa1b, Tp53

7

programmed cell death (GO:0012501)

1.19E-04

2.23E-02

9²

Ppp1r15a, App, Raf1, Atf5, Pten, Fadd, Hspa1a/Hspa1b, Tp53

8

apoptosis (GO:0006915)

1.41E-04

5.21E-02

9²

Ppp1r15a, App, Raf1, Atf5, Pten, Fadd, Hspa1a/Hspa1b, Tp53

Molecular function

3

pattern binding (GO:0001871)

3.26E-04

3.55E-02

3

Fstl1, App, Fgfr2

carbohydrate binding (GO:0030246)

1.26E-03

6.89E-02

4

Fstl1, App, Fgfr2, Clec2b

4

polysaccharide binding (GO:0030247)

3.01E-04

8.70E-02

3

Fstl1, App, Fgfr2

¹ Only GO categories with False Discovery Rate (FDR) adjusted P-value < 0.1 and represented by three or more genes;

² Although Hspa1a/Hspa1b are represented by the same probe (202581_at), these isoforms are counted as two units.

Serão et al. BMC Medical Genomics 2011 4:49   doi:10.1186/1755-8794-4-49