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Table 3 The most promising biomarker candidate proteins and peptides

From: Development of robust targeted proteomics assays for cerebrospinal fluid biomarkers in multiple sclerosis

Accession

Protein name

Peptide sequence(s)

Highest in

Cal.curve

MinLin (fmol/µl)

MaxLin (fmol/µl)

P51693

Amyloid-like protein 1

WEPDPQR

Control

Yes

0.525

560

  

FQVHTHLQVIEER

Control

No

  

P61769

Beta-2-microglobulin

VNHVTLSQPK

MS

No

  

P55290

Cadherin-13

YEVSSPYFK

Control

Yes

0.15

160

  

INENTGSVSVTR

Control

No

  

P16070

CD44 antigen

ALSIGFETCR

MS

Yes

0.105

112

Q15782

Chitinase-3-like protein 2

LVCYFTNWSQDR

MS

Yes

0.045

48

  

LLLTAGVSAGR

MS

Yes

0.045

48

P10645

Chromogranin-A

ILSILR

Control

No

  
  

SGELEQEEER

Control

Yes

0.75

800

  

EDSLEAGLPLQVR

Control

No

  

P12111

Collagen alpha-3(VI) chain

EVYTFASEPNDVFFK

MS

No

  

P54764

Ephrin type-A receptor 4

VYPANEVTLLDSR

Control

Yes

0.075

80

  

NLAQFPDTITGADTSSLVEVR

Control

No

  

Q6MZW2

Follistatin-related protein 4

GPDVGVGESQAEEPR

Control

No

  
  

FDDYNSDSSLTLR

Control

No

  
  

VLQSIGVDPLPAK

Control

Yes

0.045

48

P48058

Glutamate receptor 4

NTDQEYTAFR

Control

Yes

0.09

96

P01591

Immunoglobulin J chain

SSEDPNEDIVER

MS

No

  

Q92876

Kallikrein-6

DSCQGDSGGPLVCGDHLR

Control

Yes

0.15

160

P32004

Neural cell adhesion molecule L1

AQLLVVGSPGPVPR

Control

Yes

0.045

48

  

EGPGEAIVR

Control

No

  

Q9ULB1

Neurexin-1

DLFIDGQSK

Control

No

  
  

SDLYIGGVAK

Control

Yes

0.045

48

Q9P2S2

Neurexin-2

LSALTLSTVK

Control

Yes

0.045

48

  

GATADPLCAPAR

Control

No

  
  

AIVADPVTFK

Control

No

  

Q92823

Neuronal cell adhesion molecule

AETYEGVYQCTAR

Control

No

  
  

SLPSEASEQYLTK

Control

Yes

0.15

160

  

VFNTPEGVPSAPSSLK

Control

No

  

Q9UHG2

ProSAAS

ALAHLLEAER

Control

No

  

P23468

Receptor-type tyrosine-protein phosphatase delta

SPQGLGASTAEISAR

Control

No

  
  

SYSFVLTNR

Control

Yes

0.045

48

O00584

Ribonuclease T2

VYGVIPK

MS

No

  

P13521

Secretogranin-2

DQLSDDVSK

Control

Yes

0.045

48

  

VLEYLNQEK

Control

Yes

0.18

192

Q6UXD5

Seizure 6-like protein 2

FEAFEEDR

Control

No

  
  1. Proteins and peptides passing all quality controls described in this study, thereby representing the most promising biomarker candidates for PRM assays. The table also shows if the protein is highest in MS or control, if calibration curves have been developed, and, if so, its linear area
  2. Cal.curves: Calibration curves. MinLin: Lowest theoretical concentration that will be used for quantitation. MaxLin: Maximum theoretical concentration that will be used for quantitation