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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.

CD47

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
CD47 MER6
Sequence Length (AA) Molecular Weight (Da)
323 35214
Protein Name
Leukocyte surface antigen CD47
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MWPLVAALLL GSACCGSAQL LFNKTKSVEF TFCNDTVVIP CFVTNMEAQN
60 70 80 90 100
TTEVYVKWKF KGRDIYTFDG ALNKSTVPTD FSSAKIEVSQ LLKGDASLKM
110 120 130 140 150
DKSDAVSHTG NYTCEVTELT REGETIIELK YRVVSWFSPN ENILIVIFPI
160 170 180 190 200
FAILLFWGQF GIKTLKYRSG GMDEKTIALL VAGLVITVIV IVGAILFVPG
210 220 230 240 250
EYSLKNATGL GLIVTSTGIL ILLHYYVFST AIGLTSFVIA ILVIQVIAYI
260 270 280 290 300
LAVVGLSLCI AACIPMHGPL LISGLSILAL AQLLGLVYMK FVASNQKTIQ
310 320 323
PPRKAVEEPL NAFKESKGMM NDE

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-5975 Collapse assay details

Data source: Panorama

Official Gene Symbol
CD47
Peptide Sequence
STVPTDFSSAK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
4
Peptide Start
75
Peptide End
85
CPTAC ID
CPTAC-5975
Peptide Molecular Mass
1,138.5506
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
FFPE tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Targeted Mass Spectrometry Enables Multiplexed Quantification of Immunomodulatory Proteins in Clinical Biospecimens.Whiteaker JR, Lundeen RA, Zhao L, Schoenherr RM, Burian A, Huang D, Voytovich U, Wang T, Kennedy JJ, Ivey RG, Lin C, Murillo OD, Lorentzen TD, Thiagarajan M, Colantonio S, Caceres TW, Roberts RR, Knotts JG, Reading JJ, Kaczmarczyk JA, Richardson CW, Garcia-Buntley SS, Bocik W, Hewitt SM, Murray KE, Do N, Brophy M, Wilz SW, Yu H, Ajjarapu S, Boja E, Hiltke T, Rodriguez H, Paulovich AG.Front Immunol. 2021 Nov 11;12:765898. doi: 10.3389/fimmu.2021.765898. eCollection 2021.PMID: 34858420

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 5500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
0.3 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
y8 (2+) 5.8 4 3.8 9.1 7.3 9.2 10.8 8.3 10 13 25 14
y6 (1+) 10.8 10 10.9 15.8 8.1 14.4 19.1 12.9 18.1 13 25 14
y7 (1+) 14.2 7.4 7.9 15.5 12.6 6.8 21 14.6 10.4 13 25 14
y8 (1+) 7.7 3.5 4.9 9.6 10.2 9 12.3 10.8 10.2 13 25 14
y9 (1+) 14 7.7 5.9 16.1 13.4 10.8 21.3 15.5 12.3 13 25 14
y5 (1+) 28 21.7 12.7 23.6 23.1 16.6 36.6 31.7 20.9 13 25 14
sum 6.2 3.6 4.1 8.8 9.1 8.8 10.8 9.8 9.7 13 25 14

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
View in CPTC Antibody Portal
Comments