Table 1 Disease regulated proteins in HCC of EGF transgenic mice

1

170 kDa glucose regulated protein GRP170 precursor

7643979

AAF65544

Hyou1

111

5

214

10

0

10

8

2

T

ER, ES

[11,12]

2*

2-hydroxyphytanoyl-CoA lyase

18204150

AAH21360

Hacl1

64

5.9

261

32

19

13

22

10

0.027

0.38

P

3

3-phosphoglycerate dehydrogenase

52353955

NP_058662

Phgdh

57

6

204

14

0

14

11

3

T

[13]

4*

4931406C07Rik (Ester hydrolase C11orf54 homolog) (spot 4342)

71059921

CAJ18504

4931406C07Rik

35

5.8

184

35

17

18

24

11

0.033

1.5

N

5*

4931406C07Rik (Ester hydrolase C11orf54 homolog) (spot 4349)

71059921

CAJ18504

4931406C07Rik

35

5.8

195

33

15

18

22

11

0.244

1.9

N

6

Acylpeptide hydrolase; N-acylaminoacyl peptide hydrolase

22122789

NP_666338

Apeh

80

5.2

182

5

0

5

0

5

T

[14]

7*

Aldo-keto reductase family 1, member C12

15215042

AAH12643

Akr1c12

37

6.1

135

24

14

10

15

9

0.301

1.9

8

Akr1c18 protein (aldo-keto reductase family 1, member C18)

19527284

NP_598827

Akr1c18

37

5.9

189

11

0

11

5

6

T

C

[15]

9*

Alanyl-tRNA synthetase

34610207

NP_666329

Aars

107

5.4

178

4

0

4

0

4

T

C

10

Albumin 1 (spot 3707)

33859506

NP_033784

Alb

69

5.7

444

43

21

22

31

12

0.068

3.88

C, ES

[15,16]

11

Albumin 1 (spot 3712)

33859506

NP_033784

Alb

69

5.7

416

40

20

20

30

10

0.25

2.04

C, ES

[15,16]

12

Albumin 1 (spot 4506)

33859506

NP_033784

Alb

69

5.7

423

40

20

20

31

9

T

C, ES

[15,16]

13

Albumin 1 (spot 4702)

33859506

NP_033784

Alb

69

5.7

355

42

20

22

31

11

0.069

1.85

C, ES

[15,16]

14

Albumin 1 (spot 5509)

33859506

NP_033784

Alb

69

5.7

473

38

18

20

30

8

0.392

3.59

C, ES

[15,16]

15*

Aldo-keto reductase family 1, member C14

19527294

NP_598833

Akr1c14

37

5.9

189

11

0

11

5

6

T

16*

Aldo-keto reductase family 1, member C6

13487925

NP_085114

Akr1c6

37

8.5

120

10

0

10

7

3

T

C

17

Aldolase 1, A isoform

53733633

AAH83932

Aldoa

39

9.2

213

12

1

11

11

1

T

[17]

18*

Aldolase 3

60687506

NP_033787

Aldoc

39

6.5

153

5

0

5

4

1

T

M

19

Alpha enolase (spot 4501)

58476212

AAH89539

Gm5506 or Enol1

47

6.4

341

45

22

23

33

12

0.24

0.22

C

[3,13,18,19]

20

Alpha enolase (spot 4516)

58476212

AAH89539

Gm5506 or Enol1

47

6.4

338

40

21

19

30

10

0.161

0.47

C

[3,13,18,19]

21

Alpha enolase (spot 4524)

58476212

AAH89539

Gm5506 or Enol1

47

6.4

338

42

22

20

31

11

0.021

0.53

C

[3,13,18,19]

22

Alpha enolase (spot 5510)

58476212

AAH89539

Gm5506 or Enol1

47

6.4

330

45

22

23

34

11

0.234

0.76

C

[3,13,18,19]

23*

Alpha glucosidase 2

26326711

BAC27099

Ganab

107

5.6

269

5

0

5

0

5

T

ER, G

24

Annexin A6

31981302

NP_038500

Anxa6

76

5.3

267

5

0

5

0

5

T

C

[14,16]

25

Apolipoprotein A-IV

14789706

AAH10769

Apoa4

45

5.3

224

21

6

15

18

3

0.011

2.77

ES

[20]

26

Apolipoprotein E

71060041

CAJ18564

Apoe

36

5.5

220

31

14

17

21

10

0.01

3.97

ES

[14,21]

27

Apolipoprotein A-I (spot 2215)

26345182

BAC36241

Apoa1

31

5.4

173

38

21

17

28

10

0.001

5.4

S

[13,20,22]

28

Apolipoprotein A-I (spot 3204)

26345182

BAC36241

Apoa1

31

5.4

170

30

18

12

T

S

[20,22]

29

Arginase 1, liver

7106255

NP_031508

Arg1

35

6.6

306

38

23

15

28

10

0.013

0.32

C

[3,13,23,24]

30*

Arginase type II

6753110

NP_033835

Arg2

39

6.1

161

6

0

6

6

0

T

M

31

Argininosuccinate synthetase 1

6996911

NP_031520

Ass1

47

8.5

175

15

15

0

10

5

C

M

[25-31]

32

ATP synthase, H+ transporting, mitochondrial F0 complex, subunit d (spot 2120)

51980458

AAH81431

Atp5h

19

5.3

148

37

20

17

25

12

0.002

0.33

M

[32]

33

ATP synthase, H+ transporting, mitochondrial F0 complex, subunit d (spot 3203)

51980458

AAH81431

Atp5h

19

5.3

145

35

19

16

22

13

C

M

[32]

34*

Beta 5-tubulin

18088719

AAH20946

Tubb

50

4.7

267

11

1

10

7

4

T

Ck

35*

Branched chain ketoacid dehydrogenase E1, alpha polypeptide

31982494

NP_031559

Bckdha

50

8.4

237

26

18

8

20

6

0.018

0.5

MM

36*

Butyryl Coenzyme A synthetase 1

16905127

NP_473435

Acsm1

65

6.6

119

4

4

0

0

4

C

MM

37

Cai protein (Pdia4)

45219865

AAH66857

Pdia4

65

5.9

267

5

0

5

1

4

T

ER

38

Capping protein alpha 1 subunit (Capza1)

595917

AAC00566

Capza1

33

5.2

114

11

0

11

7

4

T

Ck

[13]

39

Carbamoyl-phosphate synthetase 1, mitochondrial

8393186

NP_058768

Cps1

165

6.3

350

31

22

9

22

9

0.023

0.2

M, C

[14,15,31,33,34]

40

Carboxylesterase MH1

14331135

BAB60698

Ces1d

62

6.2

168

4

0

4

0

4

T

ER

[17,35]

41*

cDNA sequence BC021917 (dihydroxyacetone kinase 2 homolog)

21703976

NP_663471

Dak

60

6.3

170

4

0

4

1

3

T

42

Creatine kinase

10946574

NP_067248

Ckb

43

5.3

181

4

0

4

0

4

T

M, C

[13]

43

Cryz protein

13277837

AAH03800

Cryz

35

8.2

84

5

5

0

5

0

C

C

[36]

44

Cu/Zn superoxide dismutase 1513495A

226471

1513495A

Sod1

16

5.9

186

39

21

18

27

12

0.007

2.92

[13,22]

45

DEMSMC malate dehydrogenase, cytosolic

319837

P14152

Mdh1

37

5.9

138

31

17

14

19

12

4E-05

0.27

C

[37]

46*

Dhdh (dihydrodiol dehydrogenase (dimeric)) protein

21618806

AAH31710

Dhdh

37

5.7

209

26

17

9

16

10

1E-04

0.17

47*

Diacetyl/L-xylulose reductase

50400594

Q91X52

Dcxr

26

7.8

228

5

5

0

0

5

C

MEM

48*

Dmgdh protein (Dimethylglycine dehydrogenase, mitochondrial)

12836171

BAB23536

Dmgdh

97

7.6

184

8

8

0

5

3

C

M

49*

Enoyl coenzyme A hydratase 1, peroxisomal

7949037

NP_058052

Ech1

36

7.4

162

26

11

15

21

5

0.026

0.49

M, P

50

Eukaryotic translation elongation factor 2

33859482

NP_031933

Eef2

95

6.3

208

6

0

6

3

3

T

C

[38]

51

Eukaryotic translation initiation factor 5A (eIF-5A)

124231

NP_001160068

Eif5a

17

5.1

115

10

5

5

7

3

0.106

3.4

C, N

[14]

52*

Farnesyl diphosphate synthetase

19882207

NP_608219

Fdps

41

5.4

158

5

0

5

0

5

T

C

[39]

53*

Fatty acid binding protein 5, epidermal

6754450

NP_034764

Fabp5

15

6.2

149

15

2

13

13

2

0.09

27.9

C

54

Fibrinogen, alpha polypeptide

33563252

NP_034326

Fga

61

7

144

15

0

15

10

5

T

[31,34]

55

Fibrinogen, B beta polypeptide (spot 5602)

33859809

NP_862897

Fgb

55

6.5

238

35

15

20

23

12

0.001

2.41

ES

[34]

56

Fibrinogen, B beta polypeptide (spot 5612)

33859809

NP_862897

Fgb

55

6.5

244

33

15

18

22

11

0.187

3.54

ES

[34]

57

Fibrinogen, gamma polypeptide

18044708

AAH19828

Fgg

49

5.5

196

12

1

11

5

7

T

ES

[31,40]

58

FK506 binding protein 4

6753882

NP_034349

Fkbp4

52

5.5

154

4

0

4

1

3

T

C, N

[13,14]

59

GDP dissociation inhibitor 2 (GDI 2)

38197560

AAH61767

Gdi2

51

5.8

220

5

0

5

0

5

T

G, C, MEM

[14]

60

Glutathione peroxidase 1

6680075

NP_032186

Gpx1

22

6.2

215

25

18

7

18

7

2E-05

0.28

C, M

[41-43]

61

Glutathione S-transferase, mu 2

6680121

NP_032209

Gstm2

26

7.6

222

11

1

10

7

4

T

C

[14,15]

62

Glycine N-methyltransferase (spot 4256)

34013296

AAL06142

Gnmt

33

6.9

214

23

23

0

17

6

C

C

[15,40,44,45]

63

Glycine N-methyltransferase (spot 5269)

34013296

AAL06142

Gnmt

33

6.9

226

22

22

0

15

7

C

C

[15,40,44,45]

64

Glycine N-methyltransferase (spot 9105)

34013296

AAL06142

Gnmt

33

6.9

218

20

20

0

15

5

C

C

[15,40,44,45]

65

Glycyl-tRNA synthetase

21264024

Q9CZD3

Gars

82

6.2

180

5

0

5

0

5

T

C

[46]

66

Haao protein (3-hydroxyanthranilate 3,4-dioxygenase)

15277547

AAH12872

Haao

33

6

420

35

22

13

27

8

0.006

0.24

C

[14]

67

Hal (histidine ammonia lyase) protein

35505393

AAH57637

Hal

72

5.9

301

6

6

0

0

6

C

C

[47]

68

Hemopexin

23956086

NP_059067

Hpx

51

9

231

16

2

14

11

5

0.323

7.27

ES

[48]

69

Heterogeneous nuclear ribonucleoprotein L (hnRNPL)

33667042

NP_796275

Hnrnpl

60

6.6

156

8

0

8

8

0

T

N

[13]

70

HSP60 (spot 2604)

1334284

CAA37654

Hspd1

58

5.3

298

15

7

8

6

9

0.008

0.4

MM

[13,14,35]

71

HSP60 (spot 2610)

1334284

CAA37654

Hspd1

58

5.3

298

14

7

7

6

8

0.012

0.5

MM

[13,14,35]

72*

Hypothetical protein LOC68347

58037115

NP_080962

0610011F06Rik

23

5.8

125

29

15

14

21

8

0.014

0.39

73*

Inosine triphosphatase

31982664

NP_080198

Itpa

22

5.4

139

5

0

5

5

0

T

C

74

Interleukin 1 receptor antagonist protein

238585

AAB20265

Il1rn

18

5.5

121

7

0

7

6

1

T

S, C

[35-37,41-43,45-50]

75*

Interleukin 25 or UPF0556 protein C19orf10 homolog precursor

18250288

NP_543027

D17Wsu104e

18

5.9

89

13

6

7

9

4

0.23

2.1

ES

76*

Kininogen 1

12963497

NP_075614

Kng1

48

5.7

217

21

8

13

19

2

0.091

2.8

ES

77

Lamin-A/C

15929761

AAH15302

Lmna

74

6.6

199

12

0

12

10

2

T

N

[13,15]

78*

LIM and SH3 protein 1

6754508

NP_034818

Lasp1

30

6.7

156

7

0

7

6

1

T

Ck

79

Liver fructose-1,6-bisphosphatase

6688689

CAB65244

Fbp1

37

6.2

281

29

18

11

17

12

0.013

0.35

[14,34,40]

80*

Lysophospholipase 1

6678760

NP_032892

Lypla1

25

5.9

134

25

13

12

20

5

0.25

0.25

M

81

Major urinary protein

1839508

AAB47130

Mup14

19

4.7

138

6

6

0

6

0

C

S

[51,52]

82*

Major vault protein

12003287

AAG43520

Mvp

96

5.4

238

4

0

4

0

4

T

C

83

MAWD binding protein homolog 1 or Phenazine biosynthesis-like domain-containing protein 1

31560132

NP_080977

Pbld1

32

5.1

318

25

19

6

19

6

0.065

0.38

[3,14,40]

84*

Mitochondrial acyl-CoA thioesterase 1 OR Acyl-CoA thioesterase 2

40538846

NP_598949

Acot2

50

7

123

6

6

0

1

5

C

M

85

NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 8

21312012

NP_080979

Ndufa8

20

8.8

145

4

4

0

4

0

C

M

[34,53]

86

NADH dehydrogenase (ubiquinone) Fe-S protein 1 (Ndufs1)

26331822

BAC29641

Ndufs1

80

5.5

240

5

5

0

0

5

C

M

[14]

87

NADH dehydrogenase (ubiquinone) flavoprotein 1

19526814

NP_598427

Ndufv1

51

8.5

151

4

0

4

3

1

T

M, ES

[53]

88

Nit protein 2 (spot 5315)

12963555

NP_075664

Nit2

31

6.2

347

34

18

16

24

10

C

[3,13]

89

Nit protein 2 (spot 6201)

12963555

NP_075664

Nit2

31

6.2

345

30

16

14

22

8

0.295

0.8

[3,13]

90*

Nucb1 (nucleobindin 1) protein

49117484

AAH72554

Nucb1

53

5

184

8

0

8

8

0

T

G, C, MEM

91

Peroxiredoxin 6 (spot 4207)

6671549

NP_031479

Prdx6

25

5.7

282

40

21

19

30

10

0.132

2.3

C, L

[3]

92

Peroxiredoxin 6 (spot 5216)

6671549

NP_031479

Prdx6

25

5.7

280

38

20

18

28

10

0.018

0.3

C, L

[3]

93

Phosphatidylethanolamine binding protein

53236978

AAH83063

Pebp1

21

5.2

135

12

2

10

11

1

0.008

2.2

C

[22,40,53]

94

Plasminogen

200403

AAA50168

Plg

91

6

243

9

0

9

6

3

T

S

[33,54-56]

95*

Poly(rC) binding protein 2; heterogeneous nuclear ribonucleoprotein X or Poly(rC) binding protein 1

6754994

NP_035995

Pcbp1

38

6.4

189

8

0

8

8

0

T

N

96

Agmatine ureohydrolase (agmatinase)

20848362

XP_131722

Agmat

38

8

108

24

16

8

19

5

0.003

0.1

ES

97

Prohibitin

54035592

AAH83354

Phb

30

5.4

335

39

21

18

28

11

0.018

0.6

M

[13]

98*

Psmd11 (proteasome (prosome, macropain) 26S subunit, non-ATPase, 11) protein

33585718

AAH55457

Psmd11

47

6.1

258

4

0

4

0

4

T

C

99

Pyridoxine 5′-phosphate oxidase

19527238

NP_598782

Pnpo

30

8.4

120

24

14

10

16

8

0.026

0.3

[15,40]

100

Pyruvate kinase 3 or pyruvate kinase, muscle isoform M2

31981562

NP_035229

Pkm

58

7.9

274

7

0

7

4

3

T

M

[57]

101

Pzp protein (a2-macroglobulin) or Pregnancy zone protein

34785996

AAH57983

Pzp

166

6.2

151

14

2

12

9

5

T

ES

[58]

102

Retinol binding protein 4, plasma

33859612

NP_035385

Rbp4

23

5.6

144

19

2

17

14

5

0.129

12.7

ES

[3]

103*

RIKEN cDNA 1810013B01 (abhydrolase domain containing 14b)

27753960

NP_083907

Abhd14b

23

5.6

172

31

16

15

23

8

0.042

0.6

N, C

104*

RIKEN cDNA 2410004H02 or Aldehyde dehydrogenase family 16 member A1

26080429

NP_666066

Aldh16a1

85

5.8

114

4

0

4

0

4

T

105*

Ribosomal protein S12

34849622

AAH58460

Rps12

15

7.3

90

8

1

7

6

2

0.008

2

C

106*

Sars1 protein or Seryl-aminoacyl-tRNA synthetase

14250361

AAH08612

Sars

58

5.9

199

4

0

4

0

4

T

C

107

Selenium binding protein 1

22164798

NP_033176

Selenbp1

53

5.9

336

31

19

12

21

10

0.061

0.5

C, MEM, N

[14]

108

Serine (or cysteine) proteinase inhibitor, clade B, member 6a

6678097

NP_033280

Serpinb6a

43

5.4

137

5

0

5

0

5

T

C

[13]

109*

Serpinb1a protein

12834891

BAB23079

Serpinb1a

43

5.7

255

8

8

0

4

4

C

C

110

Serum amyloid P-component

38174334

AAH61125

Apcs

26

6

141

4

0

4

0

4

T

ES

[14-16]

111*

Sorcin

13385076

NP_079894

Sri

20

4.9

129

7

0

7

6

1

T

C, MEM

112*

T43799 proteasome protein p45/SUG [imported]

11265288

P62198

Psmc5

46

7.6

222

6

0

6

6

0

T

C, N

113

T-complex protein 1, theta subunit (TCP-1-theta) (CCT-theta)

12846632

BAB27244

Cct8

50

5.5

189

5

0

5

0

5

T

C

[15]

114

Transglutaminase 2, C polypeptide

6678329

NP_033399

Tgm2

77

5

240

6

0

6

3

3

T

C, MEM

[14]

115

Transthyretin

7305599

NP_038725

Ttr

16

5.5

127

18

6

12

12

6

0.169

3

ES

[16,20]

116

Tumor metastatic process-associated protein NM23

51980604

AAH82178

Nme1

17

6.4

134

9

0

9

7

2

T

[13,14]

117*

Uap1l1 (UDP-N-acteylglucosamine pyrophosphorylase 1-like 1) protein

28175154

AAH43307

Uap1l1

57

5.2

168

4

0

4

0

4

T

118

UDP-glucose dehydrogenase

6678499

NP_033492

Ugdh

55

7.4

307

14

0

14

13

1

T

[46]

119

Galectin-3 or Lectin, galactose binding, soluble 3

52987

CAA34736

Lgals3

28

8.8

136

6

0

6

5

1

T

N, C

[13]

120*

v-crk sarcoma virus CT10 oncogene homolog

56205173

CAI24083

Crk

34

5.3

187

8

0

8

8

0

T

C, MEM

121

Vimentin

31982755

NP_035831

Vim

54

5

260

26

11

15

21

5

0.022

4

Ck

[13,35]

122

Vitamin D-binding protein

193446

AAA37669

Gc

53

5.2

229

32

15

17

22

10

0.175

1.6

ES

[59,60]