SERPINF2, CPTAC-1065 - 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-5573: View additional LPLPALFK data

10 20 30 40 50
MALLWGLLVL SWSCLQGPCS VFSPVSAMEP LGRQLTSGPN QEQVSPLTLL
60 70 80 90 100
KLGNQEPGGQ TALKSPPGVC SRDPTPEQTH RLARAMMAFT ADLFSLVAQT
110 120 130 140 150
STCPNLILSP LSVALALSHL ALGAQNHTLQ RLQQVLHAGS GPCLPHLLSR
160 170 180 190 200
LCQDLGPGAF RLAARMYLQK GFPIKEDFLE QSEQLFGAKP VSLTGKQEDD
210 220 230 240 250
LANINQWVKE ATEGKIQEFL SGLPEDTVLL LLNAIHFQGF WRNKFDPSLT
260 270 280 290 300
QRDSFHLDEQ FTVPVEMMQA RTYPLRWFLL EQPEIQVAHF PFKNNMSFVV
310 320 330 340 350
LVPTHFEWNV SQVLANLSWD TLHPPLVWER PTKVRLPKLY LKHQMDLVAT
360 370 380 390 400
LSQLGLQELF QAPDLRGISE QSLVVSGVQH QSTLELSEVG VEAAAATSIA
410 420 430 440 450
MSRMSLSSFS VNRPFLFFIF EDTTGLPLFV GSVRNPNPSA PRELKEQQDS
460 470 480 490 491
PGNKDFLQSL KGFPRGDKLF GPDLKLVPPM EEDYPQFGSP K

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-1065 Collapse assay details

Data source: Panorama

Official Gene Symbol

SERPINF2

Peptide Sequence

LGNQEPGGQTALK

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

52

Peptide End

64

CPTAC ID

non-CPTAC-1065

Peptide Molecular Mass

1,311.6783

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 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

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Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | b5 (1+) | 24.5 | 7.6 | 4.6 | 21.1 | 12.9 | 5.8 | 32.3 | 15 | 7.4 | 14 | 15 | 15 | | b4 (1+) | 26.4 | 20 | 9.3 | 36 | 21.7 | 8.5 | 44.6 | 29.5 | 12.6 | 11 | 15 | 15 | | y8 (1+) | 12.9 | 6.7 | 7 | 17.8 | 7.4 | 7 | 22 | 10 | 9.9 | 14 | 15 | 15 | | sum | 10.5 | 5.6 | 5.8 | 14.2 | 6.2 | 5.9 | 17.7 | 8.4 | 8.3 | 15 | 15 | 15 |

Additional Resources and Comments

Assay Details for non-CPTAC-5573 Collapse assay details

Data source: Panorama

Official Gene Symbol

Serpinf2

Peptide Sequence

LPLPALFK

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

44

Peptide End

51

CPTAC ID

non-CPTAC-5573

Peptide Molecular Mass

897.5688

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

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 CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | b4 (2+) | 4.5 | 2.2 | 3.2 | 13.4 | 5.6 | 5.7 | 14.1 | 6 | 6.5 | 15 | 15 | 15 | | y7 (2+) | 2 | 3.2 | 3.4 | 13.1 | 5.7 | 5.9 | 13.3 | 6.5 | 6.8 | 15 | 15 | 15 | | y5 (1+) | 2.6 | 3.6 | 2.1 | 14 | 5 | 5.4 | 14.2 | 6.2 | 5.8 | 15 | 15 | 15 | | y6 (1+) | 6.2 | 4.5 | 2.8 | 16.2 | 4.2 | 6.6 | 17.3 | 6.2 | 7.2 | 15 | 15 | 15 | | y7 (1+) | 5 | 4 | 3.1 | 18.3 | 10.2 | 6 | 19 | 11 | 6.8 | 15 | 15 | 15 | | sum | 1.1 | 1.7 | 1.6 | 13.6 | 4.9 | 5.1 | 13.6 | 5.2 | 5.3 | 15 | 15 | 15 |

Additional Resources and Comments

Assay Details for non-CPTAC-3405 Collapse assay details

Data source: Panorama

Official Gene Symbol

Serpinf2

Peptide Sequence

NPNPSALPQLQEQR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

435

Peptide End

448

CPTAC ID

non-CPTAC-3405

Peptide Molecular Mass

1,590.8114

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 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

Loader

Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y7 (1+) | 6.5 | 4.8 | 5.6 | 17.1 | 8.7 | 6.5 | 18.3 | 9.9 | 8.6 | 15 | 15 | 15 | | y12 (2+) | 7.5 | 6.1 | 10.8 | 14.3 | 9.6 | 11.3 | 16.1 | 11.4 | 15.6 | 15 | 15 | 15 | | y11 (2+) | 5.7 | 4.5 | 7.1 | 12.7 | 7.4 | 6.8 | 13.9 | 8.7 | 9.8 | 15 | 15 | 15 | | b2 (1+) | 9.2 | 5.7 | 6.8 | 16.8 | 6.9 | 7.5 | 19.2 | 8.9 | 10.1 | 15 | 15 | 15 | | b3 (1+) | 10.4 | 8 | 5.7 | 11.8 | 11.2 | 9.7 | 15.7 | 13.8 | 11.3 | 15 | 15 | 15 | | sum | 5.3 | 3 | 3 | 14.9 | 7.1 | 5.3 | 15.8 | 7.7 | 6.1 | 15 | 15 | 15 |

Additional Resources and Comments