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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.

CDH13

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
CDH13 CDHH
Sequence Length (AA) Molecular Weight (Da)
713 78287
Protein Name
Cadherin-13
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MQPRTPLVLC VLLSQVLLLT SAEDLDCTPG FQQKVFHINQ PAEFIEDQSI
60 70 80 90 100
LNLTFSDCKG NDKLRYEVSS PYFKVNSDGG LVALRNITAV GKTLFVHART
110 120 130 140 150
PHAEDMAELV IVGGKDIQGS LQDIFKFART SPVPRQKRSI VVSPILIPEN
160 170 180 190 200
QRQPFPRDVG KVVDSDRPER SKFRLTGKGV DQEPKGIFRI NENTGSVSVT
210 220 230 240 250
RTLDREVIAV YQLFVETTDV NGKTLEGPVP LEVIVIDQND NRPIFREGPY
260 270 280 290 300
IGHVMEGSPT GTTVMRMTAF DADDPATDNA LLRYNIRQQT PDKPSPNMFY
310 320 330 340 350
IDPEKGDIVT VVSPALLDRE TLENPKYELI IEAQDMAGLD VGLTGTATAT
360 370 380 390 400
IMIDDKNDHS PKFTKKEFQA TVEEGAVGVI VNLTVEDKDD PTTGAWRAAY
410 420 430 440 450
TIINGNPGQS FEIHTNPQTN EGMLSVVKPL DYEISAFHTL LIKVENEDPL
460 470 480 490 500
VPDVSYGPSS TATVHITVLD VNEGPVFYPD PMMVTRQEDL SVGSVLLTVN
510 520 530 540 550
ATDPDSLQHQ TIRYSVYKDP AGWLNINPIN GTVDTTAVLD RESPFVDNSV
560 570 580 590 600
YTALFLAIDS GNPPATGTGT LLITLEDVND NAPFIYPTVA EVCDDAKNLS
610 620 630 640 650
VVILGASDKD LHPNTDPFKF EIHKQAVPDK VWKISKINNT HALVSLLQNL
660 670 680 690 700
NKANYNLPIM VTDSGKPPMT NITDLRVQVC SCRNSKVDCN AAGALRFSLP
710 713
SVLLLSLFSL ACL

Data source: UniProt

Protein Map Collapse protein map

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-656 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH13
Peptide Modified Sequence
IN[+1.0]NTHALVSLLQNLNK
Modification Type
Deamidated (NQ)
Protein - Site of Modification
638
Peptide - Site of Modification
2
Peptide Start
637
Peptide End
652
CPTAC ID
CPTAC-656
Peptide Molecular Mass
1,791.9843
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
N/A
Matrix
serum
Submitting Laboratory
Johns Hopkins University
Submitting Lab PI
Daniel Chan, Hui Zhang, Zhen Zhang

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
Q-Exactive (ThermoFisher)
Internal Standard
synthetic peptide
Peptide Standard Purity
Crude
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Dionex UltiMate 3000 RSLCnano LC (ThermoFisher)
Column Packing
Acclaim PepMap100 C18, 5um (Trap); Acclaim PepMap RSLC C18, 2um (Analytical)
Column Dimensions
300um x 5mm (Trap); 75um x 25cm (Analytical)
Flow Rate
0.5 uL/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  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
y6 (1+) 8.2 5.1 4.9 8.2 4.5 5.2 11.6 6.8 7.1 15 15 15
b6 (1+) 6.3 4.3 3.8 6.6 5.3 4.4 9.1 6.8 5.8 15 15 15
b7 (1+) 8.1 4.3 4.5 9.3 4.8 4.2 12.3 6.4 6.2 15 15 15
sum 5.8 3.7 3.9 5.9 4.4 4.1 8.3 5.7 5.7 15 15 15

Additional Resources and Comments

Resources
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Assay Details for non-CPTAC-2636 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH13
Peptide Sequence
INENTGSVSVTR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
190
Peptide End
201
CPTAC ID
non-CPTAC-2636
Peptide Molecular Mass
1,275.6419
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
plasma
Submitting Laboratory
UVic-Genome BC Proteomics Centre
Submitting Lab PI
Christoph Borchers

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
6490 Triple Quad (Agilent)
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
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

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  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+) 15.5 6.1 7.8 14.6 8.9 9.7 21.3 10.8 12.4 15 15 15
y6 (1+) 12.2 10.3 9.4 17.6 10.4 9.8 21.4 14.6 13.6 15 15 15
y11 (2+) 19.9 12.6 10.7 22.3 11.4 11.7 29.9 17 15.9 15 15 15
b2 (1+) 11.3 6 5.5 11.2 7 6.9 15.9 9.2 8.8 15 15 15
y9 (1+) 14.3 6.4 9.5 20.4 9.5 10.3 24.9 11.5 14 15 15 15
sum 8 2.5 5.1 10.8 6.5 6.4 13.4 7 8.2 15 15 15

Additional Resources and Comments

Resources
Download SOPs
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Comments

Assay Details for non-CPTAC-3381 Collapse assay details

Data source: Panorama

Official Gene Symbol
Cdh13
Peptide Sequence
INENTGSVSVTR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
190
Peptide End
201
CPTAC ID
non-CPTAC-3381
Peptide Molecular Mass
1,275.6419
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
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
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

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view larger image
view larger image

Response Curves

Data source: Panorama

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view larger image

Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  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
b2 (1+) 14.9 8.9 10.1 15 13.4 17.2 21.1 16.1 19.9 15 15 15
y11 (2+) 39.5 11.9 12.9 33.4 11.5 12.4 51.7 16.5 17.9 15 15 15
y6 (1+) 19.3 8.6 11.9 19.7 14.1 11.6 27.6 16.5 16.6 15 15 15
y9 (1+) 9.6 9.4 8.6 8.7 12.1 9.1 13 15.3 12.5 15 15 15
y10 (1+) 11.3 5.1 5.2 21.8 11.7 9 24.6 12.8 10.4 15 15 15
sum 9.8 4.5 3.8 11.9 11 8.6 15.4 11.9 9.4 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments