HP, CPTAC-671 - CPTAC Assay Portal (original) (raw)
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.
Protein Sequence hover to view complete sequence
non-CPTAC-2671: View additional DIAPTLTLYVGK data
non-CPTAC-3406: View additional NQLVEIEK data
non-CPTAC-1128: View additional VGYVSGWGR data
non-CPTAC-3407: View additional VGYVSGWGR data
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MSALGAVIAL | LLWGQLFAVD | SGNDVTDIAD | DGCPKPPEIA | HGYVEHSVRY |
| 60 | 70 | 80 | 90 | 100 |
| QCKNYYKLRT | EGDGVYTLND | KKQWINKAVG | DKLPECEADD | GCPKPPEIAH |
| 110 | 120 | 130 | 140 | 150 |
| GYVEHSVRYQ | CKNYYKLRTE | GDGVYTLNNE | KQWINKAVGD | KLPECEAVCG |
| 160 | 170 | 180 | 190 | 200 |
| KPKNPANPVQ | RILGGHLDAK | GSFPWQAKMV | SHHNLTTGAT | LINEQWLLTT |
| 210 | 220 | 230 | 240 | 250 |
| AKNLFLNHSE | NATAKDIAPT | LTLYVGKKQL | VEIEKVVLHP | NYSQVDIGLI |
| 260 | 270 | 280 | 290 | 300 |
| KLKQKVSVNE | RVMPICLPSK | DYAEVGRVGY | VSGWGRNANF | KFTDHLKYVM |
| 310 | 320 | 330 | 340 | 350 |
| LPVADQDQCI | RHYEGSTVPE | KKTPKSPVGV | QPILNEHTFC | AGMSKYQEDT |
| 360 | 370 | 380 | 390 | 400 |
| CYGDAGSAFA | VHDLEEDTWY | ATGILSFDKS | CAVAEYGVYV | KVTSIQDWVQ |
| 406 | ||||
| KTIAEN |
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-671 Collapse assay details
Data source: Panorama
Official Gene Symbol
HP
Peptide Modified Sequence
VVLHPN[+1.0]YSQVDIGLIK
Modification Type
Deamidated (NQ)
Protein - Site of Modification
241
Peptide - Site of Modification
6
Peptide Start
236
Peptide End
251
CPTAC ID
CPTAC-671
Peptide Molecular Mass
1,794.9880
Species
Homo sapiens (Human)
Assay Type
Enrichment PRM
Enrichment Method
N-linked glycopeptide solid phase extraction
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
Assay Multiplexing Expand assay panel
Johns Hopkins University-A
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 |
| y7 (1+) | 7.2 | 12.9 | 8.8 | 11 | 12.6 | 9.6 | 13.1 | 18 | 13 | 15 | 15 | 15 |
| y6 (1+) | 7 | 10.6 | 7.1 | 7.4 | 10.1 | 10.9 | 10.2 | 14.6 | 13 | 15 | 15 | 15 |
| b4 (1+) | 6.4 | 13.9 | 9.3 | 7.6 | 13.8 | 11.4 | 9.9 | 19.6 | 14.7 | 15 | 15 | 15 |
| sum | 6.6 | 11.7 | 7.9 | 7.9 | 11.6 | 10.4 | 10.3 | 16.5 | 13.1 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-5609 Collapse assay details
Data source: Panorama
Official Gene Symbol
Hp
Peptide Sequence
AEGDGVYTLNDEK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
60
Peptide End
72
CPTAC ID
non-CPTAC-5609
Peptide Molecular Mass
1,409.6311
Species
Mus musculus (Mouse)
Assay Type
Direct PRM
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 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
Assay Multiplexing Expand assay panel
Johns Hopkins University-A
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 |
| b6 (1+) | 15.5 | 6.7 | 4.4 | 16.7 | 10 | 5.2 | 22.8 | 12 | 6.8 | 15 | 15 | 15 |
| b4 (1+) | 19.8 | 7.7 | 4.9 | 29 | 10 | 7 | 35.1 | 12.6 | 8.5 | 15 | 15 | 15 |
| b2 (1+) | 17.2 | 7.1 | 5.8 | 15.6 | 8.8 | 6.8 | 23.2 | 11.3 | 8.9 | 15 | 15 | 15 |
| y6 (1+) | 21.8 | 7.7 | 6.9 | 22.4 | 8.5 | 7.5 | 31.3 | 11.5 | 10.2 | 15 | 15 | 15 |
| y7 (1+) | 14.1 | 6.1 | 3.7 | 14.4 | 8.7 | 4.4 | 20.2 | 10.6 | 5.7 | 15 | 15 | 15 |
| sum | 6.7 | 3.1 | 2.2 | 7.3 | 6.8 | 3.9 | 9.9 | 7.5 | 4.5 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-2671 Collapse assay details
Data source: Panorama
Official Gene Symbol
HP
Peptide Sequence
DIAPTLTLYVGK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
216
Peptide End
227
CPTAC ID
non-CPTAC-2671
Peptide Molecular Mass
1,289.7231
Species
Homo sapiens (Human)
Assay Type
Direct PRM
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
Assay Multiplexing Expand assay panel
Johns Hopkins University-A
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 |
| y9 (2+) | 6.9 | 5.6 | 3.3 | 12 | 10.6 | 5.6 | 13.8 | 12 | 6.5 | 15 | 15 | 15 |
| b3 (1+) | 7 | 4 | 3.8 | 13.4 | 9.1 | 6.1 | 15.1 | 9.9 | 7.2 | 15 | 15 | 15 |
| y10 (2+) | 6.1 | 6.2 | 3.9 | 13.3 | 10.5 | 5.4 | 14.6 | 12.2 | 6.7 | 15 | 15 | 15 |
| y6 (1+) | 7.9 | 6.2 | 3.8 | 12.4 | 12.1 | 5.3 | 14.7 | 13.6 | 6.5 | 15 | 15 | 15 |
| y3 (1+) | 5.1 | 6.1 | 4.6 | 11.1 | 11.4 | 6.6 | 12.2 | 12.9 | 8 | 15 | 15 | 15 |
| sum | 6.2 | 5 | 3 | 12.4 | 9.9 | 5.2 | 13.9 | 11.1 | 6 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-3406 Collapse assay details
Data source: Panorama
Official Gene Symbol
Hp
Peptide Sequence
NQLVEIEK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
169
Peptide End
176
CPTAC ID
non-CPTAC-3406
Peptide Molecular Mass
971.5288
Species
Mus musculus (Mouse)
Assay Type
Direct PRM
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 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
Assay Multiplexing Expand assay panel
Johns Hopkins University-A
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+) | 6.7 | 4.5 | 7.4 | 13 | 5.7 | 11.9 | 14.6 | 7.3 | 14 | 15 | 15 | 15 |
| b2 (1+) | 7.3 | 3.6 | 7 | 14.5 | 6.8 | 8.3 | 16.2 | 7.7 | 10.9 | 15 | 15 | 15 |
| y4 (1+) | 7.9 | 6.5 | 7.3 | 15.3 | 8.1 | 7.1 | 17.2 | 10.4 | 10.2 | 15 | 15 | 15 |
| y5 (1+) | 5.5 | 4.8 | 6 | 11.1 | 7.9 | 8.2 | 12.4 | 9.2 | 10.2 | 15 | 15 | 15 |
| y6 (1+) | 6.9 | 7 | 5.6 | 15.9 | 9.9 | 5.8 | 17.3 | 12.1 | 8.1 | 15 | 15 | 15 |
| sum | 4.1 | 3.6 | 3.9 | 13.2 | 6.1 | 4.8 | 13.8 | 7.1 | 6.2 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-1128 Collapse assay details
Data source: Panorama
Official Gene Symbol
HP
Peptide Sequence
VGYVSGWGR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
219
Peptide End
227
CPTAC ID
non-CPTAC-1128
Peptide Molecular Mass
979.4876
Species
Homo sapiens (Human)
Assay Type
Direct PRM
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
Assay Multiplexing Expand assay panel
Johns Hopkins University-A
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+) | 4.9 | 2.9 | 3.9 | 7.4 | 5.9 | 4.3 | 8.9 | 6.6 | 5.8 | 15 | 15 | 15 |
| y4 (1+) | 5.3 | 3.4 | 3.8 | 11.9 | 8 | 6 | 13 | 8.7 | 7.1 | 15 | 15 | 15 |
| y5 (1+) | 3.6 | 5.6 | 4 | 10.7 | 6.6 | 4.8 | 11.3 | 8.7 | 6.2 | 15 | 15 | 15 |
| y6 (1+) | 3.1 | 5.3 | 4.3 | 9.8 | 7.1 | 4.3 | 10.3 | 8.9 | 6.1 | 15 | 15 | 15 |
| y8 (1+) | 7.6 | 4.9 | 4.1 | 10.9 | 6.1 | 3.9 | 13.3 | 7.8 | 5.7 | 15 | 15 | 15 |
| sum | 2.7 | 3 | 2 | 9.3 | 5.2 | 2.6 | 9.7 | 6 | 3.3 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-3407 Collapse assay details
Data source: Panorama
Official Gene Symbol
Hp
Peptide Sequence
VGYVSGWGR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
219
Peptide End
227
CPTAC ID
non-CPTAC-3407
Peptide Molecular Mass
979.4876
Species
Mus musculus (Mouse)
Assay Type
Direct PRM
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
>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
Assay Multiplexing Expand assay panel
Johns Hopkins University-A
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+) | 3.6 | 3.7 | 4.4 | 17 | 6.2 | 6.8 | 17.4 | 7.2 | 8.1 | 15 | 14 | 15 |
| y4 (1+) | 5.4 | 2.6 | 4.6 | 15.9 | 7.6 | 6.6 | 16.8 | 8 | 8 | 15 | 14 | 15 |
| y5 (1+) | 6.4 | 4.6 | 4.6 | 13.8 | 5 | 7.3 | 15.2 | 6.8 | 8.6 | 15 | 14 | 15 |
| y6 (1+) | 2.3 | 4.8 | 2.6 | 14.6 | 5.4 | 7.3 | 14.8 | 7.2 | 7.7 | 15 | 14 | 15 |
| y8 (1+) | 5 | 4.2 | 5.2 | 12.7 | 6 | 7.7 | 13.6 | 7.3 | 9.3 | 15 | 14 | 15 |
| sum | 2.8 | 1.8 | 1.9 | 14.3 | 4.6 | 5.8 | 14.6 | 4.9 | 6.1 | 15 | 14 | 15 |