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Table 1 List of lung cancer biomarker candidates screened by label-free MALDI MS and their verification result on MRM.

From: Deglycosylation and label-free quantitative LC-MALDI MS applied to efficient serum biomarker discovery of lung cancer

   

MALDI MS

MRM

 

Uniprot ID

Protein Name

Peptide Sequence

t-test †

Log2(LC/Control)

t-test ‡

Log2(LC/Control)

Correlation Coefficient

P04217

Alpha-1B-glycoprotein

CEGPIPDVTFELLREGETKAVK

-

0.67

-

-

-

  

FALVREDR

3.8E-03

-0.38

0.13

0.24

0.315

P01011

Alpha-1-antichymotrypsin

EQLSLLDRFTEDAK

1.4E-03

0.80

0.077

0.33

0.106

  

FTEDAKRLYGSEAFATDFQDSAAAK

4.6E-03

0.58

-

-

-

  

PQDTHQSR

5.6E-03

0.84

-

-

-

P43652

Afamin

DGLKYHYLIR

1.1E-03

-0.93

-

-

-

P02746

Complement C1q subcomponent subunit B

GNLCVNLMR

6.5E-03

0.87

-

-

-

P00736

Complement C1r subcomponent

CLPVCGKPVNPVEQR

-

0.42

-

-

-

  

DYFIATCK

6.9E-03

0.49

0.15

0.14

-0.238

P00450

Ceruloplasmin

YTVNQCR

0.017

1.1

3.1E-04

0.29

0.411*

P10909

Clusterin

YVNKEIQNAVNGVK

0.01

0.33

0.19

-0.87

-0.015

P06681

Complement C2

TAVDHIREILNINQK

2.7E-03

1.4

0.051

0.23

N/A

P01024

Complement C3

AGDFLEANYMNLQR

5.9E-05

-1.4

3.8E-04

-1.3

0.690**

  

ILLQGTPVAQMTEDAVDAER

2.1E-04

-1.3

0.019

-0.87

0.448*

  

KGYTQQLAFR

2.8E-03

-1.1

3.9E-05

-1.3

0.800**

  

QPSSAFAAFVKR

6.7E-03

-1.3

2.0E-03

0.24

-0.455

  

WLNEQR

2.5E-03

-1.0

7.8E-06

-1.5

0.521**

P01031

Complement C5

FWKDNLQHKDSSVPNTGTAR

0.012

0.67

-

-

-

  

TLRVVPEGVKR

0.066

0.80

-

-

-

P13671

Complement component C6

IEEADCKNKFR

0.011

1.2

-

-

-

P10643

Complement component C7

VFSGDGKDFYR

9.5E-03

0.81

-

-

-

P02748

Complement Component C9

FTPTETNKAEQCCEETASSISLHGK

2.4E-04

1.4

6.1E-03

0.49

0.472*

  

QYTgTSYDPELTESSGSASHIDCR

1.9E-03

1.1

3.8E-03

0.57

0.769**

P22792

Carboxypeptidase N subunit 2

SQCTYSNPEGTVVLACDQAQCR

1.4E-03

0.56

0.062

0.16

0.372

P00748

Coagulation factor XII

CTHKGRPGPQPWCATTPNFDQDQR

4.3E-03

1.2

-

-

-

Q9UGM5

Fetuin-B

MSPPQLALNPSALLSR

3.0E-03

0.62

0.03

0.58

0.189

P02751

Fibronectin

AQITGYR

1.1E-03

-0.47

0.077

-0.18

0.774**

  

GFNCESKPEAEETCFDKYTGNTYR

1.9E-03

-0.69

0.42

-0.11

0.146

  

IGFKLGVRPSQGGEAPR

5.7E-03

-0.90

-

-

-

P26927

Hepatocyte growth factor-like protein

RVDRLDQR

6.1E-03

-0.57

0.013

0.38

-0.128

P18065

Insulin-like growth factor-binding protein 2

LAACGPPPVAPPAAVAAVAGGAR

2.5E-03

0.67

-

-

-

Q06033

Inter-alpha-trypsin inhibitor heavy chain H3

EHLVQATPENLQEAR

4.6E-03

0.97

3.6E-03

0.65

0.578**

Q14624

Inter-alpha-trypsin inhibitor heavy chain H4

EKNGIDIYSLTVDSR

4.7E-04

0.65

0.062

0.40

0.368

  

ETLFSVMPGLK

-

0.09

0.01

0.42

0.331

  

MNFRPGVLSSR

9.8E-03

0.40

1.0E-03

0.63

0.413*

  

SPEQQETVLDGNLIIRYDVDR

0.013

1.2

-

-

-

P03952

Plasma kallikrein

CQFFTYSLLPEDCKEEKCK

-

-0.32

-

-

-

P01042

Kininogen-1

RPPGFSPF

2.0E-04

-2.0

5.1E-04

-1.74

0.876**

P27918

Properdin

TCNHPVPQHGGPFCAGDATR

7.2E-04

-0.52

-

-

-

Q13103

Secreted phosphoprotein 24

DSGEDPATCAFQR

3.7E-03

-0.53

-

-

-

  1. †: "-" indicates candidate screened by present/absent search,
  2. ‡: "-" indicates no MRM data obtained, *: P < 0.05, **: P < 0.01,
  3. g: indicates site of O-linked glycosylation
  4. N/A: valid value too small for calculation of correlation threshold.