APOC3, CPTAC-1083 - CPTAC Assay Portal (original) (raw)
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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.
Protein Sequence hover to view complete sequence
non-CPTAC-1083: View additional GWVTDGFSSLK data
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MQPRVLLVVA | LLALLASARA | SEAEDASLLS | FMQGYMKHAT | KTAKDALSSV |
| 60 | 70 | 80 | 90 | 99 |
| QESQVAQQAR | GWVTDGFSSL | KDYWSTVKDK | FSEFWDLDPE | VRPTSAVAA |
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 non-CPTAC-1083 Collapse assay details
Data source: Panorama
Official Gene Symbol
APOC3
Peptide Sequence
GWVTDGFSSLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
61
Peptide End
71
CPTAC ID
non-CPTAC-1083
Peptide Molecular Mass
1,195.5873
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 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
Repeatability
Data source: Panorama
| | 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 |
| b3 (1+) | 6.3 | 3.5 | 5.9 | 10.3 | 4.6 | 6.5 | 12.1 | 5.8 | 8.8 | 15 | 15 | 15 |
| b2 (1+) | 4.5 | 3.6 | 2.4 | 10.3 | 5.6 | 3.2 | 11.2 | 6.7 | 4 | 15 | 15 | 15 |
| y7 (1+) | 5.3 | 6 | 4.4 | 8.3 | 7.8 | 5.7 | 9.8 | 9.8 | 7.2 | 15 | 15 | 15 |
| y8 (1+) | 5.2 | 2.9 | 5.4 | 16.4 | 4.6 | 5.6 | 17.2 | 5.4 | 7.8 | 15 | 15 | 15 |
| y9 (1+) | 8.2 | 2.9 | 6.7 | 12.6 | 5.4 | 5.8 | 15 | 6.1 | 8.9 | 15 | 15 | 15 |
| sum | 3.3 | 2.4 | 2.6 | 11.1 | 4.3 | 2.5 | 11.6 | 4.9 | 3.6 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-4017 Collapse assay details
Data source: Panorama
Official Gene Symbol
Apoc3
Peptide Sequence
TVQDALSSVQESDIAVVAR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
42
Peptide End
60
CPTAC ID
non-CPTAC-4017
Peptide Molecular Mass
1,987.0222
Species
Mus musculus (Mouse)
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
Agilent 6490/6495 QQQ
Internal Standard
synthetic peptide
Peptide Standard Purity
>80%
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
Response Curves
Data source: Panorama
Retrieving Data
Repeatability
Data source: Panorama
| | 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 |
| y8 (1+) | 8.8 | 10.1 | 1.9 | 11.6 | 10.7 | 5.8 | 14.6 | 14.7 | 6.1 | 15 | 15 | 15 |
| y5 (1+) | 5.2 | 3 | 2.9 | 7.7 | 6.2 | 5.1 | 9.3 | 6.9 | 5.9 | 15 | 15 | 15 |
| y4 (1+) | 5.2 | 5.5 | 4 | 8.3 | 9.3 | 4.9 | 9.8 | 10.8 | 6.3 | 15 | 15 | 15 |
| y3 (1+) | 5.9 | 3.9 | 1.7 | 7.7 | 7.3 | 4.6 | 9.7 | 8.3 | 4.9 | 15 | 15 | 15 |
| b15 (2+) | 6.4 | 3 | 4.8 | 6.9 | 6.8 | 6.3 | 9.4 | 7.4 | 7.9 | 15 | 15 | 15 |
| sum | 3.1 | 2.4 | 1.4 | 6 | 5.8 | 4 | 6.8 | 6.3 | 4.2 | 15 | 15 | 15 |