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Table 1 GO terms most significantly associated to chromosomal regions frequently lost in cancers.

From: A large scale survey reveals that chromosomal copy-number alterations significantly affect gene modules involved in cancer initiation and progression

GO term

GO ID

Number of genes

p-value

(FDR-adjusted)

p-value

(Bonferroni-adjusted)

Cancer feature

Biological process

     

homophilic cell adhesión

GO:0007156

114

3.8779 × 10-17

4.77 × 10-18

Metastasis and invasion

calcium-dependent cell-cell adhesion

GO:0016339

22

2.0064 × 10-08

9.88 × 10-9

Metastasis and invasion

synaptogenesis

GO:0007416

30

1.2491 × 10-05

1.46 × 10-6

Unrelated

sensory perception of taste

GO:0050909

18

0.00510791

0.00299

Unrelated

cellular component organization and biogenesis

GO:0016043

2165

0.01731139

0.0764

Replicative potential

fertilization (sensu Metazoa)

GO:0009566

54

0.02135039

0.0648

Unrelated

sulfate transport

GO:0008272

12

0.02815271

0.00961

Metastasis and invasion

maintenance of fidelity during DNA-dependent DNA replication

GO:0045005

28

0.02990008

0.0141

Mutability

male gamete generation

GO:0048232

210

0.0449652

0.210

Unrelated

localization of cell

GO:0051674

410

0.06513653

0.697

Metastasis and invasion

mismatch repair

GO:0006298

27

0.09421995

0.0113

Mutability

cell cycle

GO:0007049

805

0.09599886

1.00

Replicative potential

Molecular function

     

pancreatic ribonuclease activity

GO:0004522

15

0.0046537

0.000623

Metastasis and invasion?

serine-type endopeptidase inhibitor activity

GO:0004867

89

0.0060532

0.000767

Angiogenesis

nucleotide binding

GO:0000166

1993

0.0064466

0.00183

Mutability?

sulfate porter activity

GO:0008271

10

0.0078682

0.00279

Metastasis and invasion

interferon-alpha/beta receptor binding

GO:0005132

10

0.022324

0.0180

Angiogenesis

carboxypeptidase A activity

GO:0004182

25

0.032232

0.0156

Metastasis and invasion?

lipoxygenase activity

GO:0016165

7

0.040851

0.0696

Metastasis and invasion?

Cellular component

     

cytoskeletal part

GO:0044430

613

0.0000647

0.0000153

Chromosomal instability

microtubule organizing center part

GO:0044450

26

0.014677

0.00849

Chromosomal instability

intermediate filament cytoskeleton

GO:0045111

153

0.014677

0.00924

Chromosomal instability

integral to plasma membrane

GO:0005887

1180

0.042474

1.50 × 10-001

Metastasis and invasion

  1. Given that many GO terms are tested, the popular FDR and Bonferroni methods were used to adjust for multiple-testing effects the p-values obtained when conducting a one-tailed test (see details in [14]). GO terms with p-values under a conventional threshold of p < 0.05 are listed. GO terms under a more liberal 0.05 < p < 0.15 are listed in Additional file 1 Tables S1, S2 and S3. Rightmost column makes reference to the cancer feature most probably related to the GO term.
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BMC Medical Genomics

ISSN: 1755-8794

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