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Please include the following statement when referencing the CPTAC Assay Portal
We would like to acknowledge the National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (CPTAC) Assay Portal (assays.cancer.gov) for developing assays and establishing criteria for the assays described in this publication.

Overview Data source: UniProt

Official Gene Symbol Other Aliases
MSLN MPF
Sequence Length (AA) Molecular Weight (Da)
630 68986
Protein Name
Mesothelin
Sources
UniProt
PhosphoSitePlus ®
GeneCards
Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MALPTARPLL GSCGTPALGS LLFLLFSLGW VQPSRTLAGE TGQEAAPLDG
60 70 80 90 100
VLANPPNISS LSPRQLLGFP CAEVSGLSTE RVRELAVALA QKNVKLSTEQ
110 120 130 140 150
LRCLAHRLSE PPEDLDALPL DLLLFLNPDA FSGPQACTRF FSRITKANVD
160 170 180 190 200
LLPRGAPERQ RLLPAALACW GVRGSLLSEA DVRALGGLAC DLPGRFVAES
210 220 230 240 250
AEVLLPRLVS CPGPLDQDQQ EAARAALQGG GPPYGPPSTW SVSTMDALRG
260 270 280 290 300
LLPVLGQPII RSIPQGIVAA WRQRSSRDPS WRQPERTILR PRFRREVEKT
310 320 330 340 350
ACPSGKKARE IDESLIFYKK WELEACVDAA LLATQMDRVN AIPFTYEQLD
360 370 380 390 400
VLKHKLDELY PQGYPESVIQ HLGYLFLKMS PEDIRKWNVT SLETLKALLE
410 420 430 440 450
VNKGHEMSPQ APRRPLPQVA TLIDRFVKGR GQLDKDTLDT LTAFYPGYLC
460 470 480 490 500
SLSPEELSSV PPSSIWAVRP QDLDTCDPRQ LDVLYPKARL AFQNMNGSEY
510 520 530 540 550
FVKIQSFLGG APTEDLKALS QQNVSMDLAT FMKLRTDAVL PLTVAEVQKL
560 570 580 590 600
LGPHVEGLKA EERHRPVRDW ILRQRQDDLD TLGLGLQGGI PNGYLVLDLS
610 620 630
MQEALSGTPC LLGPGPVLTV LALLLASTLA

Data source: UniProt


Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Uniprot Database Entry PhosphoSitePlus ®

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Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-6242 Collapse assay details

Data source: Panorama

Official Gene Symbol
MSLN
Peptide Sequence
EIDESLIFYK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
7
Peptide Start
310
Peptide End
319
CPTAC ID
CPTAC-6242
Peptide Molecular Mass
1,255.6336
Species
Homo Sapiens
Assay Type
Enrichment MRM
Enrichment Method
Peptide Immunoaffinity
Matrix
Frozen tissue
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 5500
Internal Standard
Extended heavy peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Eksigent
Column Packing
Reprosil C18, 3um
Column Dimensions
75µm x 15cm
Flow Rate
0.3 µL/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y8 (1+) 11.7 5.3 5.9 15.1 7.7 9.8 19.1 9.3 11.4 15 15 15
y6 (1+) 7.4 7.1 4.6 7.7 6.6 9.5 10.7 9.7 10.6 15 15 15
y4 (1+) 8 5.4 10.8 9.7 6 10.4 12.6 8.1 15 15 15 15
sum 7.4 4 4 9.2 4.8 8 11.8 6.2 8.9 15 15 15


Additional Resources and Comments


Assay Details for CPTAC-6244 Collapse assay details

Data source: Panorama

Official Gene Symbol
MSLN
Peptide Sequence
TDAVLPLTVAEVQK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
7
Peptide Start
536
Peptide End
549
CPTAC ID
CPTAC-6244
Peptide Molecular Mass
1,482.8294
Species
Homo Sapiens
Assay Type
Enrichment MRM
Enrichment Method
Peptide Immunoaffinity
Matrix
Frozen tissue
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 5500
Internal Standard
Extended heavy peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Eksigent
Column Packing
Reprosil C18, 3um
Column Dimensions
75µm x 15cm
Flow Rate
0.3 µL/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y10 (1+) 3.9 4.3 3 8.5 4.6 3 9.4 6.3 4.2 15 15 15
y9 (1+) 5.2 3.7 2.8 6.7 4.3 6.2 8.5 5.7 6.8 15 15 15
b5 (1+) 6.6 3.4 2.6 7.6 4.8 5.2 10.1 5.9 5.8 15 15 15
sum 4.9 3.5 2.3 6.8 3.8 5.1 8.4 5.2 5.6 15 15 15


Additional Resources and Comments


Assay Details for non-CPTAC-3929 Collapse assay details

Data source: Panorama

Official Gene Symbol
Msln
Peptide Sequence
TFLGGASVK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
500
Peptide End
508
CPTAC ID
non-CPTAC-3929
Peptide Molecular Mass
878.4862
Species
Mus musculus (Mouse)
Assay Type
Direct MRM
Matrix
Plasma
Submitting Laboratory
UVic-Genome BC Proteomics Centre
Submitting Lab PI
Christoph Borchers

Publication

View Details (opens in a new window)

Molecular phenotyping of laboratory mouse strains using 500 multiple reaction monitoring mass spectrometry plasma assays. Michaud SA, Sinclair NJ, Petrošová H, Palmer AL, Pistawka AJ, Zhang S, Hardie DB, Mohammed Y Eshghi A1, Richard VR, Sickmann A, Borchers CH. Commun Biol. 2018 Jun 27;1:78. doi: 10.1038/s42003-018-0087-6. eCollection 2018.


Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
Agilent 6490/6495 QQQ
Internal Standard
synthetic peptide
Peptide Standard Purity
>80%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
1290 LC (Agilent)
Column Packing
Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions
2.1 x 150 mm
Flow Rate
400 µL/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
b3 (1+) 17.2 15.4 5.3 53.7 23.4 11.2 56.4 28 12.4 15 15 15
b2 (1+) 14.2 3.4 4.8 17.9 7.6 9.6 22.8 8.3 10.7 15 15 15
y4 (2+) 122.7 124.6 124.5 186 117.6 123.2 222.8 171.3 175.2 15 15 15
y6 (1+) 19.9 7.8 3.8 22.4 11.9 9 30 14.2 9.8 15 15 15
y7 (1+) 13 2.2 4.2 14.4 4.1 5.6 19.4 4.7 7 15 15 15
sum 10.5 2.8 2.6 16.7 7.1 7 19.7 7.6 7.5 15 15 15


Additional Resources and Comments