CLIC1, CPTAC-1393 - 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
CPTAC-1397: View additional GFTIPEAFR data
CPTAC-1394: View additional YLSNAYAR data
non-CPTAC-3969: View additional NSNPALNDNLEK data
10 | 20 | 30 | 40 | 50 |
---|---|---|---|---|
MAEEQPQVEL | FVKAGSDGAK | IGNCPFSQRL | FMVLWLKGVT | FNVTTVDTKR |
60 | 70 | 80 | 90 | 100 |
RTETVQKLCP | GGQLPFLLYG | TEVHTDTNKI | EEFLEAVLCP | PRYPKLAALN |
110 | 120 | 130 | 140 | 150 |
PESNTAGLDI | FAKFSAYIKN | SNPALNDNLE | KGLLKALKVL | DNYLTSPLPE |
160 | 170 | 180 | 190 | 200 |
EVDETSAEDE | GVSQRKFLDG | NELTLADCNL | LPKLHIVQVV | CKKYRGFTIP |
210 | 220 | 230 | 240 | 241 |
EAFRGVHRYL | SNAYAREEFA | STCPDDEEIE | LAYEQVAKAL | K |
Data source: UniProt
Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs
Uniprot Database Entry PhosphoSitePlus ®
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to view detailed assay information below
All other points link out to UniProt
Phosphorylation Acetylation Ubiquitylation Other
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Assay Details for CPTAC-1397 Collapse assay details
Data source: Panorama
Official Gene Symbol
CLIC1
Peptide Sequence
GFTIPEAFR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
196
Peptide End
204
CPTAC ID
CPTAC-1397
Peptide Molecular Mass
1,036.5342
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
depleted digested plasma
Submitting Laboratory
Broad Institute
Submitting Lab PI
Steven A. Carr
Publication
View Details (opens in a new window)
Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma. Abbatiello SE, Schilling B, Mani DR, Zimmerman LJ, Hall SC, MacLean B, Albertolle M, Allen S, Burgess M, Cusack MP, Gosh M, Hedrick V, Held JM, Inerowicz HD, Jackson A, Keshishian H, Kinsinger CR, Lyssand J, Makowski L, Mesri M, Rodriguez H, Rudnick P, Sadowski P, Sedransk N, Shaddox K, Skates SJ, Kuhn E, Smith D, Whiteaker JR, Whitwell C, Zhang S, Borchers CH, Fisher SJ, Gibson BW, Liebler DC, MacCoss MJ, Neubert TA, Paulovich AG, Regnier FE, Tempst P, Carr SA. Mol Cell Proteomics. 2015 Sep;14(9):2357-74. doi: 10.1074/mcp.M114.047050. Epub 2015 Feb 18. PMID: 25693799
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Quantiva TSQ
Internal Standard
heavy stable isotope peptide (delta 8-10)
Peptide Standard Purity
>95%
Peptide Standard Label Type
15N
LC
Easy NanoLC1000
Column Packing
Reprosil C18, 1.9um, 200A
Column Dimensions
0.075 x 150 mm
Flow Rate
200 nL/min
Assay Multiplexing Expand assay panel
Broad Institute-Plasma-based Candidate Cancer Biomarkers
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+) | 5.6 | 2.8 | 2 | 10.3 | 5.2 | 4.3 | 11.7 | 5.9 | 4.7 | 15 | 15 | 15 | | y6 (1+) | 3.3 | 1.8 | 2.3 | 9.5 | 6.3 | 3.9 | 10.1 | 6.6 | 4.5 | 15 | 15 | 15 | | y5 (1+) | 1.6 | 1.7 | 1.1 | 9 | 7 | 3.4 | 9.1 | 7.2 | 3.6 | 15 | 15 | 15 | | sum | 1.5 | 1.6 | 0.9 | 9 | 6.8 | 3.4 | 9.1 | 7 | 3.5 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-1396 Collapse assay details
Data source: Panorama
Official Gene Symbol
CLIC1
Peptide Sequence
GVTFNVTTVDTK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
38
Peptide End
49
CPTAC ID
CPTAC-1396
Peptide Molecular Mass
1,280.6612
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
depleted digested plasma
Submitting Laboratory
Broad Institute
Submitting Lab PI
Steven A. Carr
Publication
View Details (opens in a new window)
Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma. Abbatiello SE, Schilling B, Mani DR, Zimmerman LJ, Hall SC, MacLean B, Albertolle M, Allen S, Burgess M, Cusack MP, Gosh M, Hedrick V, Held JM, Inerowicz HD, Jackson A, Keshishian H, Kinsinger CR, Lyssand J, Makowski L, Mesri M, Rodriguez H, Rudnick P, Sadowski P, Sedransk N, Shaddox K, Skates SJ, Kuhn E, Smith D, Whiteaker JR, Whitwell C, Zhang S, Borchers CH, Fisher SJ, Gibson BW, Liebler DC, MacCoss MJ, Neubert TA, Paulovich AG, Regnier FE, Tempst P, Carr SA. Mol Cell Proteomics. 2015 Sep;14(9):2357-74. doi: 10.1074/mcp.M114.047050. Epub 2015 Feb 18. PMID: 25693799
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Quantiva TSQ
Internal Standard
heavy stable isotope peptide (delta 8-10)
Peptide Standard Purity
>95%
Peptide Standard Label Type
15N
LC
Easy NanoLC1000
Column Packing
Reprosil C18, 1.9um, 200A
Column Dimensions
0.075 x 150 mm
Flow Rate
200 nL/min
Assay Multiplexing Expand assay panel
Broad Institute-Plasma-based Candidate Cancer Biomarkers
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+) | 7 | 1.7 | 1.2 | 5.8 | 6.5 | 3.8 | 9.1 | 6.7 | 4 | 15 | 15 | 15 | | y7 (1+) | 7.2 | 2.1 | 1.5 | 12.5 | 5.3 | 4.3 | 14.4 | 5.7 | 4.6 | 15 | 15 | 15 | | y6 (1+) | 5.1 | 1.8 | 1.8 | 6.3 | 6.4 | 3.1 | 8.1 | 6.6 | 3.6 | 15 | 15 | 15 | | sum | 2.7 | 0.8 | 1 | 6 | 6 | 3.3 | 6.6 | 6.1 | 3.4 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-1395 Collapse assay details
Data source: Panorama
Official Gene Symbol
CLIC1
Peptide Modified Sequence
IEEFLEAVLC[+57.0]PPR
Modification Type
Carbamidomethyl Cysteine
Protein - Site of Modification
89
Peptide - Site of Modification
10
Peptide Start
80
Peptide End
92
CPTAC ID
CPTAC-1395
Peptide Molecular Mass
1,571.8018
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
depleted digested plasma
Submitting Laboratory
Broad Institute
Submitting Lab PI
Steven A. Carr
Publication
View Details (opens in a new window)
Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma. Abbatiello SE, Schilling B, Mani DR, Zimmerman LJ, Hall SC, MacLean B, Albertolle M, Allen S, Burgess M, Cusack MP, Gosh M, Hedrick V, Held JM, Inerowicz HD, Jackson A, Keshishian H, Kinsinger CR, Lyssand J, Makowski L, Mesri M, Rodriguez H, Rudnick P, Sadowski P, Sedransk N, Shaddox K, Skates SJ, Kuhn E, Smith D, Whiteaker JR, Whitwell C, Zhang S, Borchers CH, Fisher SJ, Gibson BW, Liebler DC, MacCoss MJ, Neubert TA, Paulovich AG, Regnier FE, Tempst P, Carr SA. Mol Cell Proteomics. 2015 Sep;14(9):2357-74. doi: 10.1074/mcp.M114.047050. Epub 2015 Feb 18. PMID: 25693799
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Quantiva TSQ
Internal Standard
heavy stable isotope peptide (delta 8-10)
Peptide Standard Purity
>95%
Peptide Standard Label Type
15N
LC
Easy NanoLC1000
Column Packing
Reprosil C18, 1.9um, 200A
Column Dimensions
0.075 x 150 mm
Flow Rate
200 nL/min
Assay Multiplexing Expand assay panel
Broad Institute-Plasma-based Candidate Cancer Biomarkers
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 | | y6 (1+) | 26.2 | 7.4 | 5.7 | 25.7 | 11.5 | 4.9 | 36.7 | 13.7 | 7.5 | 15 | 15 | 15 | | y4 (1+) | 7.4 | 4.9 | 3.7 | 13.5 | 9.1 | 5.7 | 15.4 | 10.3 | 6.8 | 15 | 15 | 15 | | y5 (1+) | 10.1 | 5.6 | 5.7 | 17.2 | 9.2 | 5.7 | 19.9 | 10.8 | 8.1 | 15 | 15 | 15 | | sum | 9.2 | 4.2 | 3.5 | 14.8 | 8.5 | 4.8 | 17.4 | 9.5 | 5.9 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-1393 Collapse assay details
Data source: Panorama
Official Gene Symbol
CLIC1
Peptide Modified Sequence
LHIVQVVC[+57.0]K
Modification Type
Carbamidomethyl Cysteine
Protein - Site of Modification
191
Peptide - Site of Modification
8
Peptide Start
184
Peptide End
192
CPTAC ID
CPTAC-1393
Peptide Molecular Mass
1,094.6270
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
depleted digested plasma
Submitting Laboratory
Broad Institute
Submitting Lab PI
Steven A. Carr
Publication
View Details (opens in a new window)
Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma. Abbatiello SE, Schilling B, Mani DR, Zimmerman LJ, Hall SC, MacLean B, Albertolle M, Allen S, Burgess M, Cusack MP, Gosh M, Hedrick V, Held JM, Inerowicz HD, Jackson A, Keshishian H, Kinsinger CR, Lyssand J, Makowski L, Mesri M, Rodriguez H, Rudnick P, Sadowski P, Sedransk N, Shaddox K, Skates SJ, Kuhn E, Smith D, Whiteaker JR, Whitwell C, Zhang S, Borchers CH, Fisher SJ, Gibson BW, Liebler DC, MacCoss MJ, Neubert TA, Paulovich AG, Regnier FE, Tempst P, Carr SA. Mol Cell Proteomics. 2015 Sep;14(9):2357-74. doi: 10.1074/mcp.M114.047050. Epub 2015 Feb 18. PMID: 25693799
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Quantiva TSQ
Internal Standard
heavy stable isotope peptide (delta 8-10)
Peptide Standard Purity
>95%
Peptide Standard Label Type
15N
LC
Easy NanoLC1000
Column Packing
Reprosil C18, 1.9um, 200A
Column Dimensions
0.075 x 150 mm
Flow Rate
200 nL/min
Assay Multiplexing Expand assay panel
Broad Institute-Plasma-based Candidate Cancer Biomarkers
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 | | y4 (1+) | 4.3 | 2.6 | 3.2 | 5.4 | 7.7 | 4.7 | 6.9 | 8.1 | 5.7 | 15 | 15 | 15 | | y3 (1+) | 6 | 2.6 | 5.7 | 5.7 | 7.4 | 5.9 | 8.3 | 7.8 | 8.2 | 15 | 15 | 15 | | y2 (1+) | 6.1 | 4.9 | 3.4 | 7.2 | 8.1 | 4.5 | 9.4 | 9.5 | 5.6 | 15 | 15 | 15 | | sum | 4.5 | 2.5 | 2.4 | 4.1 | 7.2 | 3.4 | 6.1 | 7.6 | 4.2 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-1394 Collapse assay details
Data source: Panorama
Official Gene Symbol
CLIC1
Peptide Sequence
YLSNAYAR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
209
Peptide End
216
CPTAC ID
CPTAC-1394
Peptide Molecular Mass
956.4716
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
depleted digested plasma
Submitting Laboratory
Broad Institute
Submitting Lab PI
Steven A. Carr
Publication
View Details (opens in a new window)
Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma. Abbatiello SE, Schilling B, Mani DR, Zimmerman LJ, Hall SC, MacLean B, Albertolle M, Allen S, Burgess M, Cusack MP, Gosh M, Hedrick V, Held JM, Inerowicz HD, Jackson A, Keshishian H, Kinsinger CR, Lyssand J, Makowski L, Mesri M, Rodriguez H, Rudnick P, Sadowski P, Sedransk N, Shaddox K, Skates SJ, Kuhn E, Smith D, Whiteaker JR, Whitwell C, Zhang S, Borchers CH, Fisher SJ, Gibson BW, Liebler DC, MacCoss MJ, Neubert TA, Paulovich AG, Regnier FE, Tempst P, Carr SA. Mol Cell Proteomics. 2015 Sep;14(9):2357-74. doi: 10.1074/mcp.M114.047050. Epub 2015 Feb 18. PMID: 25693799
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Quantiva TSQ
Internal Standard
heavy stable isotope peptide (delta 8-10)
Peptide Standard Purity
>95%
Peptide Standard Label Type
15N
LC
Easy NanoLC1000
Column Packing
Reprosil C18, 1.9um, 200A
Column Dimensions
0.075 x 150 mm
Flow Rate
200 nL/min
Assay Multiplexing Expand assay panel
Broad Institute-Plasma-based Candidate Cancer Biomarkers
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+) | 6.6 | 3.6 | 3.6 | 7.3 | 6.8 | 3.7 | 9.8 | 7.7 | 5.2 | 15 | 15 | 15 | | y6 (1+) | 2.4 | 1.9 | 3.1 | 4.2 | 6.4 | 3.5 | 4.8 | 6.7 | 4.7 | 15 | 15 | 15 | | y5 (1+) | 4.2 | 2.9 | 3.2 | 5 | 7.1 | 3.4 | 6.5 | 7.7 | 4.7 | 15 | 15 | 15 | | sum | 2.2 | 2 | 2.8 | 4 | 6.4 | 3.3 | 4.6 | 6.7 | 4.3 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-3969 Collapse assay details
Data source: Panorama
Official Gene Symbol
Clic1
Peptide Sequence
NSNPALNDNLEK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
120
Peptide End
131
CPTAC ID
non-CPTAC-3969
Peptide Molecular Mass
1,327.6368
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 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
Broad Institute-Plasma-based Candidate Cancer Biomarkers
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+) | 24 | 11.2 | 9.9 | 27.1 | 12.6 | 10.1 | 36.2 | 16.9 | 14.1 | 15 | 15 | 15 | | b2 (1+) | 8.6 | 4 | 5.4 | 14.5 | 6.1 | 6.5 | 16.9 | 7.3 | 8.5 | 15 | 15 | 15 | | y9 (2+) | 20.4 | 10.7 | 8 | 26.7 | 11.4 | 6.9 | 33.6 | 15.6 | 10.6 | 15 | 15 | 15 | | y10 (2+) | 20.1 | 10.3 | 8.8 | 23.1 | 10.7 | 9.6 | 30.6 | 14.9 | 13 | 15 | 15 | 15 | | y9 (1+) | 8.7 | 5.5 | 4.2 | 12 | 6.6 | 6.2 | 14.8 | 8.6 | 7.5 | 15 | 15 | 15 | | sum | 4.4 | 3.9 | 3.2 | 11.9 | 5.1 | 4.8 | 12.7 | 6.4 | 5.8 | 15 | 15 | 15 |