Csf1, CPTAC-3701 - 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-3701: View additional TFHETPLQLLEK data

10 20 30 40 50
MTARGAAGRC PSSTWLGSRL LLVCLLMSRS IAKEVSEHCS HMIGNGHLKV
60 70 80 90 100
LQQLIDSQME TSCQIAFEFV DQEQLDDPVC YLKKAFFLVQ DIIDETMRFK
110 120 130 140 150
DNTPNANATE RLQELSNNLN SCFTKDYEEQ NKACVRTFHE TPLQLLEKIK
160 170 180 190 200
NFFNETKNLL EKDWNIFTKN CNNSFAKCSS RDVVTKPDCN CLYPKATPSS
210 220 230 240 250
DPASASPHQP PAPSMAPLAG LAWDDSQRTE GSSLLPSELP LRIEDPGSAK
260 270 280 290 300
QRPPRSTCQT LESTEQPNHG DRLTEDSQPH PSAGGPVPGV EDILESSLGT
310 320 330 340 350
NWVLEEASGE ASEGFLTQEA KFSPSTPVGG SIQAETDRPR ALSASPFPKS
360 370 380 390 400
TEDQKPVDIT DRPLTEVNPM RPIGQTQNNT PEKTDGTSTL REDHQEPGSP
410 420 430 440 450
HIATPNPQRV SNSATPVAQL LLPKSHSWGI VLPLGELEGK RSTRDRRSPA
460 470 480 490 500
ELEGGSASEG AARPVARFNS IPLTDTGHVE QHEGSSDPQI PESVFHLLVP
510 520 530 540 550
GIILVLLTVG GLLFYKWKWR SHRDPQTLDS SVGRPEDSSL TQDEDRQVEL
552
PV

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 CPTAC-6245 Collapse assay details

Data source: Panorama

Official Gene Symbol

CSF1

Peptide Sequence

SHSSGSVLPLGELEGR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

7

Peptide Start

428

Peptide End

443

CPTAC ID

CPTAC-6245

Peptide Molecular Mass

1,623.8216

Species

Homo Sapiens

Assay Type

Enrichment MRM

Enrichment Method

N/A

Matrix

Frozen tissue

Submitting Laboratory

Fred Hutchinson Cancer Research Center

Submitting Lab PI

Amanda Paulovich

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

QTRAP 5500

Internal Standard

Extended heavy peptide

Peptide Standard Purity

>95%

Peptide Standard Label Type

13C and 15N at C-terminus R

LC

Eksigent

Column Packing

Reprosil C18, 3um

Column Dimensions

75µm x 15cm

Flow Rate

0.3 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 | | b7 (1+) | 12.7 | 13.6 | 7.5 | 10.6 | 9.8 | 10.2 | 16.5 | 16.8 | 12.7 | 15 | 15 | 15 | | y6 (1+) | 11.6 | 7.4 | 7.5 | 10.5 | 10.3 | 10 | 15.6 | 12.7 | 12.5 | 15 | 15 | 15 | | y8 (1+) | 9.2 | 8 | 4.3 | 8.9 | 10.3 | 3.9 | 12.8 | 13 | 5.8 | 15 | 15 | 15 | | b8 (1+) | 6.8 | 7.9 | 5.6 | 6.9 | 8 | 5.2 | 9.7 | 11.2 | 7.6 | 15 | 15 | 15 | | y8 (2+) | 9.2 | 6.1 | 3.3 | 7.7 | 7.3 | 7 | 12 | 9.5 | 7.7 | 15 | 15 | 15 | | sum | 7.3 | 3.3 | 2 | 6.5 | 5.4 | 4.1 | 9.8 | 6.3 | 4.6 | 15 | 15 | 15 |

Additional Resources and Comments

Assay Details for non-CPTAC-3701 Collapse assay details

Data source: Panorama

Official Gene Symbol

Csf1

Peptide Sequence

TFHETPLQLLEK

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

137

Peptide End

148

CPTAC ID

non-CPTAC-3701

Peptide Molecular Mass

1,454.7769

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

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 | | y5 (1+) | 4.7 | 2.5 | 2.6 | 7.7 | 3.6 | 3.1 | 9 | 4.4 | 4 | 15 | 15 | 15 | | b8 (2+) | 7.4 | 8.2 | 3.4 | 9.4 | 12.1 | 4.1 | 12 | 14.6 | 5.3 | 15 | 15 | 15 | | b7 (2+) | 6.9 | 3.6 | 1.7 | 11.9 | 5.5 | 2.7 | 13.8 | 6.6 | 3.2 | 15 | 15 | 15 | | y7 (2+) | 11.9 | 8 | 5.1 | 12 | 10.1 | 5 | 16.9 | 12.9 | 7.1 | 15 | 15 | 15 | | y4 (1+) | 7.1 | 9.2 | 4.4 | 9.1 | 11.3 | 4.6 | 11.5 | 14.6 | 6.4 | 15 | 15 | 15 | | sum | 4.5 | 6.6 | 2.8 | 6.2 | 9.1 | 3 | 7.7 | 11.2 | 4.1 | 15 | 15 | 15 |

Additional Resources and Comments