Table 3

Biological associations between genes and breast cancer

Gene

General description

Support

Endpoint D

Endpoint E

Overlap

Position

Overlap

Position


CA12

Highly correlated with ErĪ±

+

67

-5

61

4

MAPT

prognostic values in ER(+) Primary breast cancers in 3 patient cohorts

+

43

-7

22

26

ESR1

Involved in pathological processes of breast cancer

+

33

-2

53

1

GATA3

A breast cancer marker

+

25

-14

40

6

BTG3

Protein coding

22

75

-142

NFIB

Differentially expressed reported [39]

22

84

20

-61

LDHB

Protein coding

21

27

-239

RARRES1

Downregulated reported [40]

20

2

19

-2

CCND1

Aberrantly regulated and could contribute to therapeutic failure in the context of ER-positive breast cancer

+

18

-56

145

ELF5

Downregulated reported [41]

16

7

-16

IL6ST

Protein coding

-60

33

60

SLC39A6

Coregulated with estrogen receptor in some breast cancers

+

-64

25

41

TBC1D9

Protein coding

-25

25

19

ABAT

Protein coding

-34

16

29


Genes marked '+' indicates experimental support for a role in breast cancer in Support. Unless otherwise stated, descriptions were collected from Entrez Gene [25]. Numbers in the Overlap reflect number of gene overlap, for the top 10 ranked genes of two endpoints. Values for Position reflect these genes' rank in the descending sorted list of fold-change values, signs of which represent gene positions in the two ends of the list. Almost all top 10 genes for each endpoint rank in the top 200 up-regulated or down-regulated genes. Furthermore, among the genes common to these two endpoints, the change in expression level was not always correlated. In other words, genes up-regulated in endpoint D could be down-regulated in endpoint E.

Chang et al. BMC Genomics 2011 12(Suppl 5):S6   doi:10.1186/1471-2164-12-S5-S6

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