Lap3, CPTAC-3688 - 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-3688: View additional GVLFASGQNLAR data

non-CPTAC-3689: View additional TIQVDNTDAEGR data

10 20 30 40 50
MYLLPLPAAA RVALRRLGVR GLWDRGLSTA DMTKGLVLGI YAKDKDDDLP
60 70 80 90 100
QFTSAGESFN KLVSGKLREM LNISGPPLKA GKTRTFYGLH QDFPSVVVVG
110 120 130 140 150
LGKRSAGVDD QENWHEGKEN IRAAVAAGCR QVQDLELPSV EVDPCGDAQA
160 170 180 190 200
AAEGAVLGLY EYDDLKQKKK VAVSAKLHGS GDLEAWEKGV LFASGQNLAR
210 220 230 240 250
HLMESPANEM TPTRFAEIIE KNLKSASSKT KVHIRPKSWI EEQEMGSFLS
260 270 280 290 300
VAKGSEEPPV FLEIHYMGSP NATEAPLVFV GKGITFDSGG ISIKASANMD
310 320 330 340 350
LMRADMGGAA TICSAIVSAA KLNLPINIIG LAPLCENMPS GKANKPGDVV
360 370 380 390 400
RARNGKTIQV DNTDAEGRLI LADALCYAHT FNPKVIINAA TLTGAMDVAL
410 420 430 440 450
GSGATGVFTN SSWLWNKLFE ASVETGDRVW RMPLFEHYTR QVIDCQLADV
460 470 480 490 500
NNLGKYRSAG ACTAAAFLRE FVTHTKWAHL DIAGVMTNKD EIPYLRKGMS
510 519
GRPTRTLIEF LLRFSKDSS

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-3688 Collapse assay details

Data source: Panorama

Official Gene Symbol

Lap3

Peptide Sequence

GVLFASGQNLAR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

189

Peptide End

200

CPTAC ID

non-CPTAC-3688

Peptide Molecular Mass

1,231.6673

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

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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 | | y7 (1+) | 17.6 | 9.7 | 7.1 | 12.9 | 9.5 | 10.7 | 21.8 | 13.6 | 12.8 | 15 | 15 | 15 | | y8 (1+) | 11.1 | 6.3 | 7.2 | 14.4 | 8.1 | 7.6 | 18.2 | 10.3 | 10.5 | 15 | 15 | 15 | | y9 (1+) | 11.8 | 5.1 | 7.3 | 11.3 | 8.5 | 6.2 | 16.3 | 9.9 | 9.6 | 15 | 15 | 15 | | y10 (2+) | 24.7 | 8.7 | 7.3 | 26.6 | 8.9 | 8.7 | 36.3 | 12.4 | 11.4 | 15 | 15 | 15 | | y6 (1+) | 10.1 | 8.6 | 5.5 | 9.5 | 10.1 | 6.5 | 13.9 | 13.3 | 8.5 | 15 | 15 | 15 | | sum | 6.1 | 5.5 | 3 | 5.2 | 5.2 | 4.2 | 8 | 7.6 | 5.2 | 15 | 15 | 15 |

Additional Resources and Comments

Assay Details for non-CPTAC-3689 Collapse assay details

Data source: Panorama

Official Gene Symbol

Lap3

Peptide Sequence

TIQVDNTDAEGR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

357

Peptide End

368

CPTAC ID

non-CPTAC-3689

Peptide Molecular Mass

1,317.6161

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

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 | | y8 (1+) | 17 | 6 | 7 | 18.7 | 7.7 | 7.2 | 25.3 | 9.8 | 10 | 15 | 15 | 15 | | y9 (1+) | 10.3 | 6.6 | 4.9 | 11.5 | 7.6 | 5.6 | 15.4 | 10.1 | 7.4 | 15 | 15 | 15 | | b3 (1+) | 13.3 | 7.3 | 5.1 | 15 | 9.5 | 7.8 | 20 | 12 | 9.3 | 15 | 15 | 15 | | b2 (1+) | 12.4 | 5.9 | 5.9 | 20 | 6.1 | 4.7 | 23.5 | 8.5 | 7.5 | 15 | 15 | 15 | | y4 (1+) | 19.3 | 9 | 7.1 | 21.4 | 8 | 8.5 | 28.8 | 12 | 11.1 | 15 | 15 | 15 | | sum | 5.4 | 3.9 | 3.1 | 10.4 | 5 | 4.3 | 11.7 | 6.3 | 5.3 | 15 | 15 | 15 |

Additional Resources and Comments