Table 5

Top most regulated genes after BMP4 signaling.

# regulated events

Gene Id

Gene name

Gene description

Up

Down

Total


ENSG00000144724

PTPRG

protein tyrosine phosphatase, receptor type, G

23

0

23

ENSG00000125968

ID1

inhibitor of DNA binding 1, dominant negative helix-loop-helix protein

19

0

19

ENSG00000179088

C12orf42

uncharacterized protein C12orf42

19

0

19

ENSG00000158050

DUSP2

dual specificity phosphatase 2

18

0

18

ENSG00000109163

GNRHR

gonadotropin-releasing hormone receptor

18

0

18

ENSG00000234906

APOC2

apolipoprotein C-II

18

0

18

ENSG00000117318

ID3

inhibitor of DNA binding 3, dominant negative helix-loop-helix protein

17

0

17

ENSG00000115738

ID2

inhibitor of DNA binding 2, dominant negative helix-loop-helix protein

16

0

16

ENSG00000172201

ID4

inhibitor of DNA binding 4, dominant negative helix-loop-helix protein

16

0

16

ENSG00000197442

MAP3K5

mitogen-activated protein kinase kinase kinase 5

15

0

15

ENSG00000127129

EDN2

endothelin 2

15

0

15

ENSG00000164850

GPER

G protein-coupled estrogen receptor 1

15

0

15

ENSG00000181638

ZFP41

zinc finger protein 41 homolog (mouse)

15

0

15

ENSG00000181626

ANKRD62

ankyrin repeat domain 62

15

0

15

ENSG00000187957

DNER

delta/notch-like EGF repeat containing

14

0

14

ENSG00000238243

OR2W3

olfactory receptor, family 2, subfamily W, member 3

14

0

14

ENSG00000164683

HEY1

hairy/enhancer-of-split related with YRPW motif 1

14

0

14

ENSG00000157322

CLEC18A

C-type lectin domain family 18, member A

13

1

14

ENSG00000247097

C14orf184

Putative uncharacterized protein C14orf184

8

6

14

ENSG00000212124

TAS2R19

taste receptor, type 2, member 19

9

4

13

ENSG00000186115

CYP4F2

cytochrome P450, family 4, subfamily F, polypeptide 2

6

7

13

ENSG00000176472

ZNF575

zinc finger protein 575

7

6

13

ENSG00000181722

ZBTB20

zinc finger and BTB domain containing 20

7

6

13

ENSG00000163827

LRRC2

leucine rich repeat containing 2

12

0

12

ENSG00000214049

UCA1

urothelial cancer associated 1

12

0

12

ENSG00000132854

KANK4

KN motif and ankyrin repeat domains 4

12

0

12

ENSG00000163749

CCDC158

coiled-coil domain containing 158

12

0

12

ENSG00000100029

PES1

pescadillo homolog 1, containing BRCT domain (zebrafish)

0

12

12

ENSG00000120645

IQSEC3

IQ motif and Sec7 domain 3

0

12

12

ENSG00000122852

SFTPA1

surfactant protein A1

9

3

12

ENSG00000052802

SC4MOL

sterol-C4-methyl oxidase-like

9

3

12

ENSG00000197532

OR6Y1

olfactory receptor, family 6, subfamily Y, member 1

8

4

12

ENSG00000078328

RBFOX1

RNA binding protein, fox-1 homolog (C. elegans) 1

8

4

12

ENSG00000185010

F8

coagulation factor VIII, procoagulant component

8

4

12

ENSG00000115756

HPCAL1

hippocalcin-like 1

8

4

12

ENSG00000122859

NEUROG3

neurogenin 3

5

7

12

ENSG00000186810

CXCR3

chemokine (C-X-C motif) receptor 3

6

6

12

ENSG00000168874

ATOH4

atonal homolog 8 (Drosophila)

11

0

11

ENSG00000040731

CDH10

cadherin 10, type 2 (T2-cadherin)

11

0

11

ENSG00000168930

TRIM49

tripartite motif-containing 49

11

0

11

ENSG00000104863

LIN7B

lin-7 homolog B (C. elegans)

11

0

11

ENSG00000113391

FAM172A

microRNA 2277

11

0

11

ENSG00000162614

NEXN

nexilin (F actin binding protein)

11

0

11

ENSG00000120693

SMAD9

SMAD family member 9

11

0

11

ENSG00000176907

C8orf4

Uncharacterized protein C8orf4 (Thyroid cancer protein 1)(TC-1)

10

1

11

ENSG00000085224

ATRX

alpha thalassemia/mental retardation syndrome X-linked

10

1

11

ENSG00000163743

RCHY1

ring finger and CHY zinc finger domain containing 1

9

2

11

ENSG00000006007

GDE1

glycerophosphodiester phosphodiesterase 1

9

2

11

ENSG00000114850

SSR3

signal sequence receptor, gamma (translocon-associated protein gamma)

9

2

11

ENSG00000109472

CPE

carboxypeptidase E

9

2

11

ENSG00000106608

URGCP

upregulator of cell proliferation

2

9

11

ENSG00000064201

TSPAN32

tetraspanin 32

8

3

11

ENSG00000212128

TAS2R13

taste receptor, type 2, member 13

8

3

11

ENSG00000092871

RFFL

ring finger and FYVE-like domain containing 1

7

4

11

ENSG00000139880

CDH24

cadherin 24, type 2

4

7

11

ENSG00000039319

ZFYVE16

zinc finger, FYVE domain containing 16

4

7

11

ENSG00000206052

DOK6

docking protein 6

6

5

11

ENSG00000050165

DKK3

dickkopf homolog 3 (Xenopus laevis)

5

6

11

ENSG00000115844

DLX2

distal-less homeobox 2

10

0

10

ENSG00000178343

SHISA3

shisa homolog 3 (Xenopus laevis)

10

0

10

ENSG00000123329

ARHGAP9

Rho GTPase activating protein 9

10

0

10

ENSG00000145287

PLAC8

placenta-specific 8

10

0

10

ENSG00000187634

SAMD11

sterile alpha motif domain containing 11

10

0

10

ENSG00000167962

ZNF598

zinc finger protein 598

10

0

10

ENSG00000003509

C2orf56

Protein midA homolog, mitochondrial Precursor

8

2

10

ENSG00000143153

ATP1B1

ATPase, Na+/K+ transporting, beta 1 polypeptide

8

2

10

ENSG00000189079

ARID2

AT rich interactive domain 2 (ARID, RFX-like)

2

8

10

ENSG00000162706

CADM3

cell adhesion molecule 3

7

3

10

ENSG00000147488

ST18

suppression of tumorigenicity 18 (breast carcinoma) (zinc finger protein)

7

3

10

ENSG00000182175

RGMA

RGM domain family, member A

7

3

10

ENSG00000163623

NKX6-1

NK6 homeobox 1

3

7

10

ENSG00000144559

C3orf31

MMP37-like protein, mitochondrial Precursor

6

4

10

ENSG00000153002

CPB1

carboxypeptidase B1 (tissue)

6

4

10

ENSG00000181965

NEUROG1

neurogenin 1

6

4

10

ENSG00000171564

FGB

fibrinogen beta chain

6

4

10

ENSG00000132612

VPS4A

vacuolar protein sorting 4 homolog A (S. cerevisiae)

6

4

10

ENSG00000183023

SLC8A1

solute carrier family 8 (sodium/calcium exchanger), member 1

4

6

10

ENSG00000166748

AGBL1

ATP/GTP binding protein-like 1

5

5

10

ENSG00000204882

GPR20

G protein-coupled receptor 20

5

5

10

ENSG00000159216

RUNX1

runt-related transcription factor 1

5

5

10


Differentially expressed genes resulting from the general filtering of BMP4 data (1, 678) were ranked according to the number of times a gene was up- and downregulated throughout the series of cell lines and time points. Only those genes with total rank value of at least 10 are listed.

Rodriguez-Martinez et al. BMC Medical Genomics 2011 4:80   doi:10.1186/1755-8794-4-80

Open Data