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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.

Overview Data source: UniProt

Official Gene Symbol Other Aliases
KRT7 SCL
Sequence Length (AA) Molecular Weight (Da)
469 51386
Protein Name
Keratin, type II cytoskeletal 7
Sources
UniProt
PhosphoSitePlus ®
GeneCards
Human Protein Atlas

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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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-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
Enrichment Method
peptide immunoaffinity
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

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
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
Enrichment Method
peptide immunoaffinity
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

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
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
Enrichment Method
peptide immunoaffinity
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

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
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
Enrichment Method
peptide immunoaffinity
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

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
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
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

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
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
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

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
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


Additional Resources and Comments