Table 2

Graph centrality based breast cancer signatures

BC

CC

DC

EC

IC

SC


TP53

TP53

TP53

TP53

TP53

TP53

EGFR

ESR1

EGFR

ESR1

EGFR

ESR1

CTNNB1

AR

EP300

EP300

EP300

EP300

SMAD3

EGFR

ESR1

AR

ESR1

AR

ESR1

EP300

BRCA1

BRCA1

BRCA1

BRCA1

EP300

SMAD3

CREBBP

CREBBP

CREBBP

CREBBP

SRC

BRCA1

SMAD3

SMAD3

AR

SMAD3

BRCA1

CTNNB1

AR

EGFR

SMAD3

EGFR

CREBBP

SRC

CTNNB1

HDAC1

SRC

HDAC1

AR

CREBBP

SRC

STAT3

CTNNB1

STAT3

UBE2I

AKT1

HDAC1

RB1

HDAC1

RB1

DYNLL1

HDAC1

CASP3

CTNNB1

RB1

CTNNB1

CASP3

STAT3

RB1

JUN

PIK3R1

JUN

ACTB

STAT1

PIK3R1

SRC

CASP3

SRC

AKT1

XRCC6

STAT3

AKT1

STAT3

AKT1

HDAC1

RB1

UBE2I

SMARCA4

AKT1

SMARCA4

PIK3R1

PIK3R1

AKT1

CDKN1A

SHC1

CDKN1A

ZBTB16

PML

CDK2

PML

CDK2

PML

ACVR1

UBE2I

PCNA

STAT1

JUN

STAT1

RB1

HSPA8

SHC1

CDK2

STAT1

CDK2

STAT1

CASP3

JUN

NCOA6

UBE2I

NCOA6

HGS

CDK2

DYNLL1

HDAC2

CDKN1A

HDAC2

CDK2

SMARCA4

STAT1

PIK3R1

PCNA

PIK3R1

YWHAZ

CDKN1A

ACTB

UBE2I

HDAC2

UBE2I

BCL2

JUN

CDKN1A

XRCC6

SMARCA4

XRCC6

XRCC6

CDH1

MAPK14

HIF1A

NFKB1

HIF1A

STAT3

YWHAZ

YWHAZ

NFKB1

CDH1

NFKB1

PLK1

MAPK14

BCL2

CASP3

ACTB

CASP3

PCNA

PRKDC

HDAC2

E2F1

MAPK14

E2F1

HSPA8

HIF1A

ATM

CEBPB

LYN

CEBPB

FN1

SHC1

LYN

PRKDC

XRCC6

PRKDC

VIM

STUB1

NFKB1

SHC1

ATM

SHC1

CD44

HDAC2

XRCC6

NCOA2

ZBTB16

NCOA2

MAPK14

ERBB2

CDH1

CCND1

E2F1

CCND1

GNB2L1

HSPA4

SMARCA4

PCNA

YWHAZ

PCNA

FANCA

BCL2

EZR

TDG

BCL2

TDG

EEF1A1

ZBTB16

HGS

ERBB2

PML

ERBB2

SKIL

LYN

ZBTB16

HSPA4

JAK1

HSPA4

SHC1

NCOA6

PLK1

ZBTB16

EZR

ZBTB16

USP7

PAK1

CAV1

RXRA

PRKDC

RXRA

CAV1

MDM4

E2F1

MAPK14

JAK2

MAPK14

JUN

CASP8

JAK1

JAK2

CASP8

JAK2

RXRA

CEBPB

RXRA

STUB1

RXRA

STUB1

LYN

NFKB1

FN1

CDK7

ERBB2

CDK7

CDKN1A

JAK2

HSPA8

PTPN6

HIF1A

PTPN6

HIF1A

PTPN6

VAV1

ATM

CAV1

ATM

ATM

HGS

ACVR1

BCL3

HSPA8

BCL3

EZR

EZR

CASP8

DDX5

VAV1

DDX5

PPP1CA

CAV1

HIF1A

RBL1

CDKN2A

RBL1

PAK1

PIAS4

JAK2

FOS

NCOA6

FOS

PLSCR1

TDG

PML

CDH1

PTPN6

CDH1

TGFBR2

IGF1R

CDKN2A

MDM4

DYNLL1

MDM4

AURKA

DDX5

EEF1A1

ING1

HGS

ING1

KPNB1

MET

ERBB2

SIN3A

SIN3A

SIN3A


54 genes with highest graph centrality in the context-constrained PIN are selected to consist new breast cancer gene signatures. The genes in the six signatures identified by six graph centrality measurements are listed in this table.

Wang et al. BMC Systems Biology 2011 5(Suppl 3):S10   doi:10.1186/1752-0509-5-S3-S10

Open Data