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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.

F9

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
F9 N/A
Sequence Length (AA) Molecular Weight (Da)
461 51778
Protein Name
Coagulation factor IX
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MQRVNMIMAE SPGLITICLL GYLLSAECTV FLDHENANKI LNRPKRYNSG
60 70 80 90 100
KLEEFVQGNL ERECMEEKCS FEEAREVFEN TERTTEFWKQ YVDGDQCESN
110 120 130 140 150
PCLNGGSCKD DINSYECWCP FGFEGKNCEL DVTCNIKNGR CEQFCKNSAD
160 170 180 190 200
NKVVCSCTEG YRLAENQKSC EPAVPFPCGR VSVSQTSKLT RAETVFPDVD
210 220 230 240 250
YVNSTEAETI LDNITQSTQS FNDFTRVVGG EDAKPGQFPW QVVLNGKVDA
260 270 280 290 300
FCGGSIVNEK WIVTAAHCVE TGVKITVVAG EHNIEETEHT EQKRNVIRII
310 320 330 340 350
PHHNYNAAIN KYNHDIALLE LDEPLVLNSY VTPICIADKE YTNIFLKFGS
360 370 380 390 400
GYVSGWGRVF HKGRSALVLQ YLRVPLVDRA TCLRSTKFTI YNNMFCAGFH
410 420 430 440 450
EGGRDSCQGD SGGPHVTEVE GTSFLTGIIS WGEECAMKGK YGIYTKVSRY
460 461
VNWIKEKTKL T

Data source: UniProt

Protein Map Collapse protein map

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-3576 Collapse assay details

Data source: Panorama

Official Gene Symbol
F9
Peptide Sequence
ASISYSSK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
181
Peptide End
188
CPTAC ID
non-CPTAC-3576
Peptide Molecular Mass
841.4181
Species
Mus musculus (Mouse)
Assay Type
Direct MRM
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

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  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
y6 (2+) 14.7 3.9 5.1 15.4 6.7 9.8 21.3 7.8 11 15 15 15
y2 (1+) 10.2 5.9 9.5 13.5 7.7 8.8 16.9 9.7 12.9 15 15 15
y3 (1+) 9.1 9 4.3 18.7 9.8 9.4 20.8 13.3 10.3 15 15 15
y5 (1+) 7.1 6.6 5.6 10.2 6.9 7.5 12.4 9.5 9.4 15 15 15
y6 (1+) 5.4 5.7 4.6 5.9 10.6 5 8 12 6.8 15 15 15
sum 4.8 3.4 2.4 7.5 6.3 5.9 8.9 7.2 6.4 15 15 15

Additional Resources and Comments

Resources
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Assay Details for non-CPTAC-5605 Collapse assay details

Data source: Panorama

Official Gene Symbol
F9
Peptide Sequence
EYTNIFLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
350
Peptide End
357
CPTAC ID
non-CPTAC-5605
Peptide Molecular Mass
1,026.5386
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

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  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
y2 (1+) 19.5 6.8 6.9 21.9 7.6 6.5 29.3 10.2 9.5 15 15 15
y3 (1+) 13.7 7.1 7.1 14.7 9.1 7.8 20.1 11.5 10.5 15 15 15
y4 (1+) 19.6 9 4.4 14.8 9.8 7.9 24.6 13.3 9 15 15 15
y5 (1+) 12 5.9 8.2 11.2 7.5 8.2 16.4 9.5 11.6 15 15 15
y6 (1+) 9.1 3.2 8.1 9.4 7.5 7.8 13.1 8.2 11.2 15 15 15
sum 6.4 3 3.3 7.4 6.3 4.1 9.8 7 5.3 15 15 15

Additional Resources and Comments

Resources
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Comments

Assay Details for non-CPTAC-2647 Collapse assay details

Data source: Panorama

Official Gene Symbol
F9
Peptide Sequence
SALVLQYLR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
365
Peptide End
373
CPTAC ID
non-CPTAC-2647
Peptide Molecular Mass
1,061.6233
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 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

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

view larger image
  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
y5 (1+) 6.1 4.5 10.3 13.1 6.7 15.4 14.5 8.1 18.5 15 15 15
y4 (1+) 6.2 7.6 9.5 14.8 11.4 11.6 16 13.7 15 15 15 15
b3 (1+) 5.8 8.7 6.6 8.6 14.1 12.7 10.4 16.6 14.3 15 15 15
y6 (1+) 4.3 6.6 8.6 12.4 10.5 9.2 13.1 12.4 12.6 15 15 15
y7 (2+) 9.9 5.9 11.2 14.4 9.4 12.6 17.5 11.1 16.9 15 15 15
sum 3.7 3.5 8.1 10.3 8.3 11.1 10.9 9 13.7 15 15 15

Additional Resources and Comments

Resources
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Comments

Assay Details for non-CPTAC-3415 Collapse assay details

Data source: Panorama

Official Gene Symbol
F9
Peptide Sequence
TIPHHQYNATINK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
309
Peptide End
321
CPTAC ID
non-CPTAC-3415
Peptide Molecular Mass
1,535.7845
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
>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

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
view larger image

Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  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
b2 (1+) 6.4 5.1 8.7 17.3 9.8 11.2 18.4 11 14.2 15 15 15
y11 (3+) 8.3 5.3 9.1 18.2 11.3 7.9 20 12.5 12.1 15 15 15
y9 (2+) 16.3 11.2 19 18.5 11.9 21.2 24.7 16.3 28.5 15 15 15
y11 (2+) 8 5.3 8 16.4 10.7 9.8 18.2 11.9 12.7 15 15 15
y2 (1+) 8.2 7 6.5 16.3 8.5 9.1 18.2 11 11.2 15 15 15
sum 3.7 3.6 4.6 16.1 9.6 6 16.5 10.3 7.6 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments