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Table 3 High-scoring proteins of interest identified by TMT 3D–LC–MS/MS profiling

From: Discovery of non-invasive biomarkers for the diagnosis of endometriosis

Acc. No.

Description

Biomarker score

Protein score

Unique peptides

PSMs

Ratio ES/CS

Ratio ES/PS

Ratio EP/CP

Ratio EcS/ES

Ratio PS/CS

P14384

Carboxypeptidase M CPM

26

154

2

6

1.619

2.525

2.451

0.319

0.633

P26599

Polypyrimidine tract-binding protein 1 PTBP1

24.6

264

7

11

2.646

2.771

0.953

0.377

0.787

Q14764

Major vault protein MVP

23

151

3

7

0.143

0.158

0.425

10.978

0.894

P29373

Cellular retinoic acid-binding protein 2 CRABP2

23

83

2

3

2.078

1.612

2.544

1.436

1.382

Q01995

Transgelin TAGLN

22.2

2119

17

95

1.105

1.324

2.171

18.832

1.240

Q01105

Protein SET

22.2

937

6

29

0.914

0.919

1.084

0.330

0.881

P00915

Carbonic anhydrase 1 CA1

22

5011

14

263

2.086

2.902

0.933

1.285

0.627

O94788

Retinal dehydrogenase 2 ALDH1A2

21.4

301

9

12

0.838

0.898

1.542

0.456

0.903

P16949

Stathmin STMN1

21.2

293

7

16

1.044

0.926

1.411

0.471

0.994

Q13308

Tyrosine-protein kinase 7 PTK7

21.2

362

3

13

0.510

0.677

1.497

0.293

0.807

P06703

Protein S100A6

21

762

5

47

1.379

1.653

0.795

3.364

0.774

P09466

Glycodelin PAEP

20.6

698

2

18

0.622

0.863

0.950

0.210

0.705

P02751

Fibronectin FN1

20.4

251

8

9

2.706

1.288

0.630

2.104

2.005

Q96KP4

Cytosolic non-specific dipeptidase CNDP2

20.2

1519

16

43

0.724

1.078

0.535

0.333

0.710

P00167

Cytochrome b5 CYB5A

20

692

7

29

0.835

0.880

0.205

0.979

0.948

P06401

Progesterone receptor PGR

20

37

1

1

1.415

1.762

2.420

0.321

0.792

P59665

Neutrophil defensin 1 DEFA1

19.6

137

3

11

0.325

2.476

1.315

4.989

0.133

P17661

Desmin DES

19.6

4279

24

216

0.904

0.930

1.381

3.056

1.063

Q05682

Caldesmon CALD1

19.4

677

6

25

1.162

0.950

1.260

7.685

1.223

Q7KZ85

Transcription elongation factor SPT6 SUPT6H

19.4

53

1

6

2.143

3.101

0.960

0.843

0.682

Q9HC84

Mucin-5B MUC5B

19.2

471

12

18

0.193

3.853

0.386

0.650

0.088

P12111

Collagen alpha-3(VI) chain COL6A3

19

687

12

27

1.933

1.254

1.209

18.478

1.597

P51884

Lumican LUM

19

1340

13

51

1.021

0.952

1.216

14.892

1.033

P60660

Myosin light polypeptide 6 MYL6

19

2726

12

92

1.378

0.878

1.148

5.003

1.382

P20774

Mimecan OGN

18.6

731

9

28

0.831

0.798

1.212

20.121

0.905

P09493

Tropomyosin alpha-1 chain TPM1

18.6

4361

8

186

1.004

1.007

1.245

10.119

0.964

P07951

Tropomyosin beta chain TPM2

18.6

4277

6

178

0.988

1.032

1.239

9.162

0.913

P06702

Protein S100A9

18.6

286

3

7

0.406

7.751

2.632

7.255

0.061

P67936

Tropomyosin alpha-4 chain TPM4

18.4

4288

12

201

1.014

1.023

1.230

7.301

0.918

P24821

Tenascin TNC

18.4

83

5

5

1.817

1.682

1.502

1.151

1.022

O00264

PGRMC1

18.4

191

4

8

1.013

1.035

1.561

0.609

1.228

P52907

F-actin-capping protein subunit a1 CAPZA1

18.2

145

4

7

3.031

1.078

0.885

1.459

1.280

P51888

Prolargin PRELP

18

84

3

5

0.504

0.471

1.466

33.466

1.145

Q05707

Collagen alpha-1(XIV) chain COL14A1

18

1210

18

49

1.294

0.834

0.898

10.120

1.426

P21333

Filamin-A FLNA

18

2103

41

77

1.227

0.967

1.509

2.216

1.357

P22105

Tenascin-X TNXB

18

85

3

3

1.548

1.570

1.155

2.143

0.973

P04792

Heat shock protein beta-1 HSPB1

17.8

1495

8

69

1.298

0.775

1.077

4.369

1.586

Q12805

Protein EFEMP1

17.6

62

2

3

2.222

1.596

0.921

1.974

1.373

Q32P28

Prolyl 3-hydroxylase 1 LEPRE1

17.6

139

3

4

1.399

1.023

1.415

0.547

1.260

P21291

Cysteine and glycine-rich protein 1 CSRP1

17.4

489

6

17

0.912

1.039

1.080

21.887

0.735

P02452

Collagen alpha-1(I) chain COL1A1

17.4

830

11

45

1.124

0.428

0.904

5.938

2.536

P18206

Vinculin VCL

17.4

1911

29

73

1.404

0.904

1.131

2.429

1.425

P35749

Myosin-11 MYH11

17.2

1059

14

40

0.986

1.006

1.228

3.765

1.372

P12004

Proliferating cell nuclear antigen PCNA

17.2

107

4

7

0.954

0.709

1.790

0.414

1.326

  1. Selection of proteins with biomarker score, protein score, numbers of unique peptides and peptide spectrum matches (PSMs) and ratios of expression for the different tissue comparisons. Proteins in italics are of particular note with several selected for serum testing
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Clinical Proteomics

ISSN: 1559-0275