KRT7, CPTAC-1520 - 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
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MSIHFSSPVF | TSRSAAFSGR | GAQVRLSSAR | PGGLGSSSLY | GLGASRPRVA |
| 60 | 70 | 80 | 90 | 100 |
| VRSAYGGPVG | AGIREVTINQ | SLLAPLRLDA | DPSLQRVRQE | ESEQIKTLNN |
| 110 | 120 | 130 | 140 | 150 |
| KFASFIDKVR | FLEQQNKLLE | TKWTLLQEQK | SAKSSRLPDI | FEAQIAGLRG |
| 160 | 170 | 180 | 190 | 200 |
| QLEALQVDGG | RLEAELRSMQ | DVVEDFKNKY | EDEINHRTAA | ENEFVVLKKD |
| 210 | 220 | 230 | 240 | 250 |
| VDAAYMSKVE | LEAKVDALND | EINFLRTLNE | TELTELQSQI | SDTSVVLSMD |
| 260 | 270 | 280 | 290 | 300 |
| NSRSLDLDGI | IAEVKAQYEE | MAKCSRAEAE | AWYQTKFETL | QAQAGKHGDD |
| 310 | 320 | 330 | 340 | 350 |
| LRNTRNEISE | MNRAIQRLQA | EIDNIKNQRA | KLEAAIAEAE | ERGELALKDA |
| 360 | 370 | 380 | 390 | 400 |
| RAKQEELEAA | LQRGKQDMAR | QLREYQELMS | VKLALDIEIA | TYRKLLEGEE |
| 410 | 420 | 430 | 440 | 450 |
| SRLAGDGVGA | VNISVMNSTG | GSSSGGGIGL | TLGGTMGSNA | LSFSSSAGPG |
| 460 | 469 | |||
| LLKAYSIRTA | SASRRSARD |
Data source: UniProt
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
Phosphorylation Acetylation Ubiquitylation Other
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Assay Details for CPTAC-5843 Collapse assay details
Data source: Panorama
Official Gene Symbol
KRT7
Peptide Sequence
LPDIFEAQIAGLR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
137
Peptide End
149
CPTAC ID
CPTAC-5843
Peptide Molecular Mass
1,441.7929
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM or SRM
Enrichment Method
N/A
Matrix
Frozen breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich
Publication
View Details (opens in a new window)
Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectSRM1
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 |
| y11 (1+) | 20 | 34.4 | 19.7 | 36.7 | 68.3 | 70 | 41.8 | 76.5 | 72.7 | 15 | 17 | 15 |
| y9 (1+) | 17.4 | 29.1 | 20.2 | 35.2 | 65.2 | 67.5 | 39.3 | 71.4 | 70.5 | 15 | 17 | 15 |
| y8 (1+) | 17.2 | 30.1 | 17.8 | 33.9 | 66.5 | 66.6 | 38 | 73 | 68.9 | 15 | 17 | 15 |
| y7 (1+) | 13.6 | 31.6 | 21.1 | 34 | 68.1 | 70.4 | 36.6 | 75.1 | 73.5 | 15 | 17 | 15 |
| y12 (2+) | 17 | 30.2 | 20 | 38.3 | 64.8 | 70.3 | 41.9 | 71.5 | 73.1 | 15 | 17 | 15 |
| sum | 16.2 | 30.1 | 19.6 | 35.2 | 66.1 | 68.6 | 38.7 | 72.6 | 71.3 | 15 | 17 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-5868 Collapse assay details
Data source: Panorama
Official Gene Symbol
KRT7
Peptide Sequence
LPDIFEAQIAGLR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
137
Peptide End
149
CPTAC ID
CPTAC-5868
Peptide Molecular Mass
1,441.7929
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM or SRM
Enrichment Method
N/A
Matrix
FFPE breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich
Publication
View Details (opens in a new window)
Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectSRM1
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+) | 12.3 | 7.2 | 25.3 | 10 | 10.7 | 27.3 | 15.9 | 12.9 | 37.2 | 12 | 12 | 12 |
| y8 (1+) | 11.7 | 8.9 | 21.6 | 8.6 | 10.6 | 23.1 | 14.5 | 13.8 | 31.6 | 12 | 12 | 12 |
| y9 (1+) | 11.3 | 8.8 | 19.9 | 11 | 13.4 | 23.1 | 15.8 | 16 | 30.5 | 12 | 12 | 12 |
| y11 (1+) | 15.7 | 11.3 | 21.6 | 15.8 | 14.7 | 26.4 | 22.3 | 18.5 | 34.1 | 12 | 12 | 12 |
| y12 (2+) | 8.2 | 6.3 | 16.8 | 6.5 | 14.2 | 20.8 | 10.5 | 15.5 | 26.7 | 12 | 12 | 12 |
| sum | 9.8 | 7.7 | 20.5 | 8.8 | 11.9 | 23.3 | 13.2 | 14.2 | 31 | 12 | 12 | 12 |
Additional Resources and Comments
Assay Details for CPTAC-5844 Collapse assay details
Data source: Panorama
Official Gene Symbol
KRT7
Peptide Sequence
SAYGGPVGAGIR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
53
Peptide End
64
CPTAC ID
CPTAC-5844
Peptide Molecular Mass
1,103.5724
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM or SRM
Enrichment Method
N/A
Matrix
Frozen breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich
Publication
View Details (opens in a new window)
Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectSRM1
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+) | 12.9 | 3.4 | 4.5 | 12 | 6 | 4.9 | 17.6 | 6.9 | 6.7 | 15 | 17 | 15 |
| y10 (1+) | 13.1 | 3.9 | 2.3 | 10.1 | 4.8 | 2.7 | 16.5 | 6.2 | 3.5 | 15 | 17 | 15 |
| y9 (1+) | 12.4 | 3.6 | 3.9 | 10.4 | 6 | 4.4 | 16.2 | 7 | 5.9 | 15 | 17 | 15 |
| y7 (1+) | 12.5 | 3.5 | 3.7 | 11 | 5.5 | 3.4 | 16.7 | 6.5 | 5 | 15 | 17 | 15 |
| y10 (2+) | 11.1 | 2.2 | 3 | 11 | 4.4 | 3.5 | 15.6 | 4.9 | 4.6 | 15 | 17 | 15 |
| sum | 11.5 | 1.7 | 2.3 | 10 | 4.6 | 2.3 | 15.2 | 4.9 | 3.3 | 15 | 17 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-5869 Collapse assay details
Data source: Panorama
Official Gene Symbol
KRT7
Peptide Sequence
SAYGGPVGAGIR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
53
Peptide End
64
CPTAC ID
CPTAC-5869
Peptide Molecular Mass
1,103.5724
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM or SRM
Enrichment Method
N/A
Matrix
FFPE breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich
Publication
View Details (opens in a new window)
Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectSRM1
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 |
| y10 (2+) | 10.9 | 3.1 | 4.9 | 11.2 | 4.1 | 5.7 | 15.6 | 5.1 | 7.5 | 12 | 12 | 12 |
| y7 (1+) | 12.9 | 3.6 | 4.3 | 13.5 | 3.6 | 3.3 | 18.7 | 5.1 | 5.4 | 12 | 12 | 12 |
| y8 (1+) | 11.4 | 4.9 | 2.6 | 13.2 | 6.3 | 2.4 | 17.4 | 8 | 3.5 | 12 | 12 | 12 |
| y9 (1+) | 14.2 | 4.8 | 2.2 | 14.3 | 4.7 | 2.4 | 20.2 | 6.7 | 3.3 | 12 | 12 | 12 |
| y10 (1+) | 14.5 | 6.5 | 2.1 | 14.6 | 6.4 | 2.5 | 20.6 | 9.1 | 3.3 | 12 | 12 | 12 |
| sum | 11.9 | 2.9 | 2.4 | 12.2 | 3.3 | 2.6 | 17 | 4.4 | 3.5 | 12 | 12 | 12 |
Additional Resources and Comments
Assay Details for CPTAC-1520 Collapse assay details
Data source: Panorama
Official Gene Symbol
KRT7
Peptide Sequence
SAYGGPVGAGIR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
53
Peptide End
64
CPTAC ID
CPTAC-1520
Peptide Molecular Mass
1,103.5724
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Ovarian cancer tumor tissue lysate
Submitting Laboratory
Pacific Northwest National Laboratory
Submitting Lab PI
Tao Liu
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
TSQ Vantage
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Waters nanoACQUITY (Part Number 176016000)
Column Packing
Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)
Column Dimensions
100 um x 100 mm
Flow Rate
0.4 uL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectSRM1
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 |
| y10 (2+) | 5.8 | 8 | 3 | 40.3 | 29.3 | 29.2 | 40.7 | 30.4 | 29.4 | 15 | 15 | 15 |
| y7 (1+) | 6.1 | 7.7 | 2.2 | 25.7 | 27.7 | 28.3 | 26.4 | 28.8 | 28.4 | 15 | 15 | 15 |
| y9 (1+) | 4.7 | 5.4 | 0.9 | 38 | 29.1 | 29.6 | 38.3 | 29.6 | 29.6 | 15 | 15 | 15 |
| sum | 3 | 6.6 | 1.4 | 35.4 | 28.8 | 29.1 | 35.5 | 29.5 | 29.1 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-1521 Collapse assay details
Data source: Panorama
Official Gene Symbol
KRT7
Peptide Sequence
SLDLDGIIAEVK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
254
Peptide End
265
CPTAC ID
CPTAC-1521
Peptide Molecular Mass
1,271.6973
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Ovarian cancer tumor tissue lysate
Submitting Laboratory
Pacific Northwest National Laboratory
Submitting Lab PI
Tao Liu
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
TSQ Vantage
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Waters nanoACQUITY (Part Number 176016000)
Column Packing
Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)
Column Dimensions
100 um x 100 mm
Flow Rate
0.4 uL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectSRM1
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+) | 8.6 | 5.9 | 1.6 | 51 | 39.2 | 43.1 | 51.7 | 39.6 | 43.1 | 15 | 15 | 15 |
| y8 (1+) | 5.6 | 5.2 | 2.8 | 47.9 | 40.9 | 44.6 | 48.2 | 41.2 | 44.7 | 15 | 15 | 15 |
| y10 (1+) | 4.6 | 5.3 | 3.1 | 52.2 | 41.5 | 44.6 | 52.4 | 41.8 | 44.7 | 15 | 15 | 15 |
| sum | 3.7 | 5.1 | 2 | 50.2 | 40.7 | 44.2 | 50.3 | 41 | 44.2 | 15 | 15 | 15 |