Cd48, CPTAC-4020 - CPTAC Assay Portal | Office of Cancer Clinical Proteomics Research

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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.

Overview Data source: UniProt

Official Gene Symbol	Other Aliases
Cd48	Bcm-1

Sequence Length (AA)	Molecular Weight (Da)
240	27383

Protein Name
CD48 antigen

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MCFIKQGWCL	VLELLLLPLG	TGFQGHSIPD	INATTGSNVT	LKIHKDPLGP
60	70	80	90	100
YKRITWLHTK	NQKILEYNYN	STKTIFESEF	KGRVYLEENN	GALHISNVRK
110	120	130	140	150
EDKGTYYMRV	LRETENELKI	TLEVFDPVPK	PSIEINKTEA	STDSCHLRLS
160	170	180	190	200
CEVKDQHVDY	TWYESSGPFP	KKSPGYVLDL	IVTPQNKSTF	YTCQVSNPVS
210	220	230	240
SKNDTVYFTL	PCDLARSSGV	CWTATWLVVT	TLIIHRILLT

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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All other points link out to UniProt

Assay Details for CPTAC-6064 Collapse assay details

Data source: Panorama

Official Gene Symbol: CD48
Peptide Sequence: LQVLDPVPKPVIK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 125
Peptide End: 137

CPTAC ID: CPTAC-6064
Peptide Molecular Mass: 1,444.9017
Species: Human
Assay Type: Enrichment MRM
Enrichment Method: IMAC
Matrix: FFPE lung tumor tissue lysate pool
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Publication

View Details (opens in a new window)

Whiteaker JR, Zhao L, Schoenherr RM, Huang D, Lundeen RA, Voytovich U, Kennedy JJ, Ivey RG, Lin C, Murillo OD, Lorentzen TD, Colantonio S, Caceres TW, Roberts RR, Knotts JG, Reading JJ, Perry CD, Richardson CW, Garcia-Buntley SS, Bocik W, Hewitt SM, Chowdhury S, Vandermeer J, Smith SD, Gopal AK, Ramchurren N, Fling SP, Wang P, Paulovich AG. A multiplexed assay for quantifying immunomodulatory proteins supports correlative studies in immunotherapy clinical trials. Front Oncol. 2023 May 2;13:1168710. doi: 10.3389/fonc.2023.1168710. PMID: 37205196; PMCID: PMC10185886.

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 0.075 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

Repeatability

Data source: Panorama

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	Average intra-assay CV (within day CV)			Average inter-assay CV (between day CV)			Total CV			n=
Fragment ion / Transition	Low	Med	High	Low	Med	High	Low	Med	High	Low	Med	High
b5 (1+)	21	22.5	26.8	34.5	25.1	27	40.4	33.7	38	15	15	15
y10 (2+)	28.9	17.8	25	43	23.4	24.8	51.8	29.4	35.2	15	15	15
y8 (2+)	24.1	17.9	21.7	38.6	28.7	19.9	45.5	33.8	29.4	15	15	15
y9 (2+)	28.4	15.1	23.5	37	24.6	26.6	46.6	28.9	35.5	15	15	15
sum	20.7	17.3	22.7	37.2	25.7	21.8	42.6	31	31.5	15	15	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

View Protein in Panorama

Comments

Assay Details for CPTAC-1199 Collapse assay details

Data source: Panorama

Official Gene Symbol: CD48
Peptide Sequence: LQVLDPVPKPVIK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 125
Peptide End: 137

CPTAC ID: CPTAC-1199
Peptide Molecular Mass: 1,444.9017
Species: Homo sapiens (Human)
Assay Type: Direct MRM
Matrix: Ovarian cancer tumor tissue lysate
Submitting Laboratory: Pacific Northwest National Laboratory
Submitting Lab PI: Tao Liu