F2, CPTAC-3432 - CPTAC Assay Portal (original) (raw)

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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.

Protein Sequence hover to view complete sequence

non-CPTAC-3432: View additional YGFYTHVFR data

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 non-CPTAC-5620 Collapse assay details

Data source: Panorama

Official Gene Symbol

F2

Peptide Sequence

TTDAEFHTFFNEK

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

312

Peptide End

324

CPTAC ID

non-CPTAC-5620

Peptide Molecular Mass

1,585.7049

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

>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

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 | | b9 (2+) | 12.6 | 9.7 | 17.1 | 16.5 | 8.6 | 23.4 | 20.8 | 13 | 29 | 15 | 15 | 15 | | b2 (1+) | 2.8 | 2.5 | 3.4 | 5.1 | 6.1 | 4.3 | 5.8 | 6.6 | 5.5 | 15 | 15 | 15 | | y11 (2+) | 3.2 | 2.9 | 3.4 | 5.3 | 8.5 | 3.9 | 6.2 | 9 | 5.2 | 15 | 15 | 15 | | y12 (2+) | 5.8 | 2.4 | 2.9 | 9.9 | 7.3 | 4.1 | 11.5 | 7.7 | 5 | 15 | 15 | 15 | | y6 (1+) | 6.4 | 3.8 | 3.1 | 8.6 | 7.4 | 4.2 | 10.7 | 8.3 | 5.2 | 15 | 15 | 15 | | sum | 2.2 | 1.5 | 1.8 | 4.4 | 6.5 | 3.2 | 4.9 | 6.7 | 3.7 | 15 | 15 | 15 |

Additional Resources and Comments

Assay Details for non-CPTAC-3432 Collapse assay details

Data source: Panorama

Official Gene Symbol

F2

Peptide Sequence

YGFYTHVFR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

597

Peptide End

605

CPTAC ID

non-CPTAC-3432

Peptide Molecular Mass

1,188.5716

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 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

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 (2+) | 7.5 | 6.6 | 8.5 | 22.3 | 7.3 | 10.1 | 23.5 | 9.8 | 13.2 | 15 | 14 | 15 | | y7 (2+) | 4.2 | 9.5 | 6.2 | 14.8 | 11.8 | 7.1 | 15.4 | 15.1 | 9.4 | 15 | 14 | 15 | | y8 (2+) | 8.7 | 5.3 | 5.4 | 16.2 | 10.4 | 6.7 | 18.4 | 11.7 | 8.6 | 15 | 14 | 15 | | y4 (1+) | 8.2 | 7.4 | 7.5 | 10.8 | 10.5 | 6.9 | 13.6 | 12.8 | 10.2 | 15 | 14 | 15 | | y5 (1+) | 4.8 | 6.3 | 5.9 | 9.1 | 9 | 6.4 | 10.3 | 11 | 8.7 | 15 | 14 | 15 | | sum | 4.9 | 4.6 | 3.5 | 14.5 | 8.7 | 4.4 | 15.3 | 9.8 | 5.6 | 15 | 14 | 15 |

Additional Resources and Comments