ACOT7, CPTAC-303 - CPTAC Assay Portal (original) (raw)

Please include the following statement when referencing the CPTAC Assay Portal

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

10	20	30	40	50
MKLLARALRL	CEFGRQASSR	RLVAGQGCVG	PRRGCCAPVQ	VVGPRADLPP
60	70	80	90	100
CGACITGRIM	RPDDANVAGN	VHGGTILKMI	EEAGAIISTR	HCNSQNGERC
110	120	130	140	150
VAALARVERT	DFLSPMCIGE	VAHVSAEITY	TSKHSVEVQV	NVMSENILTG
160	170	180	190	200
AKKLTNKATL	WYVPLSLKNV	DKVLEVPPVV	YSRQEQEEEG	RKRYEAQKLE
210	220	230	240	250
RMETKWRNGD	IVQPVLNPEP	NTVSYSQSSL	IHLVGPSDCT	LHGFVHGGVT
260	270	280	290	300
MKLMDEVAGI	VAARHCKTNI	VTASVDAINF	HDKIRKGCVI	TISGRMTFTS
310	320	330	340	350
NKSMEIEVLV	DADPVVDSSQ	KRYRAASAFF	TYVSLSQEGR	SLPVPQLVPE
360	370	380
TEDEKKRFEE	GKGRYLQMKA	KRQGHAEPQP

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-304 Collapse assay details

Data source: Panorama

Official Gene Symbol

ACOT7

Peptide Sequence

AASAFFTYVSLSQEGR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

325

Peptide End

340

CPTAC ID

CPTAC-304

Peptide Molecular Mass

1,732.8421

Species

Homo sapiens (Human)

Assay Type

Direct MRM

Matrix

cell line lysate pool

Submitting Laboratory

Broad Institute and FHCRC

Submitting Lab PI

Steve Carr

Publication

View Details (opens in a new window)

Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins. Kennedy JJ, Abbatiello SE, Kim K, Yan P, Whiteaker JR, Lin C, Kim JS, Zhang Y, Wang X, Ivey RG, Zhao L, Min H, Lee Y, Yu MH, Yang EG, Lee C, Wang P, Rodriguez H, Kim Y, Carr SA, Paulovich AG. Nat Methods. 2014 Feb;11(2):149-55. doi: 10.1038/nmeth.2763. Epub 2013 Dec 8. PMID: 24317253

Response curves acquired at Broad Institute. Repeatability data acquired at Fred Hutchinson Cancer Research Center.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

5500 QTRAP (ABSCIEX)

Internal Standard

peptide

Peptide Standard Purity

>95%

Peptide Standard Label Type

13C,15N

nanoLC-Ultra 2D, cHiPLC-nanoflex (Eksigent)

Column Packing

ChromXP C18-CL, 3 um, 120A

Column Dimensions

150 x 0.075 mm

Flow Rate

500 nL / 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 CV equation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y10 (1+) | 7.7 | 7.7 | 6.9 | 12.6 | 11.9 | 16.9 | 14.8 | 14.2 | 18.3 | 25 | 15 | 15 | | y9 (1+) | 13 | 10 | 12.7 | 20.2 | 13.3 | 21.1 | 24 | 16.6 | 24.6 | 25 | 15 | 15 | | y8 (1+) | 10.2 | 10.6 | 8 | 17 | 11.2 | 19.6 | 19.8 | 15.4 | 21.2 | 25 | 15 | 15 | | sum | 8.8 | 6.6 | 6.5 | 14.5 | 10.5 | 16.9 | 17 | 12.4 | 18.1 | 25 | 15 | 15 |

Additional Resources and Comments

Assay Details for CPTAC-303 Collapse assay details

Data source: Panorama

Official Gene Symbol

ACOT7

Peptide Sequence

VLEVPPVVYSR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

173

Peptide End

183

CPTAC ID

CPTAC-303

Peptide Molecular Mass

1,256.7129

Species

Homo sapiens (Human)

Assay Type

Direct MRM

Matrix

cell line lysate pool

Submitting Laboratory

Broad Institute and FHCRC

Submitting Lab PI

Steve Carr

Publication

View Details (opens in a new window)

Response curves acquired at Broad Institute. Repeatability data acquired at Fred Hutchinson Cancer Research Center.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

5500 QTRAP (ABSCIEX)

Internal Standard

peptide

Peptide Standard Purity

>95%

Peptide Standard Label Type

13C and 15N R

nanoLC-Ultra 2D, cHiPLC-nanoflex (Eksigent)

Column Packing

ChromXP C18-CL, 3 um, 120A

Column Dimensions

150 x 0.075 mm

Flow Rate

500 nL / 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 CV equation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y9 (1+) | 21.5 | 8 | 7.3 | 18.8 | 8.7 | 10.5 | 28.6 | 11.8 | 12.8 | 15 | 25 | 15 | | y7 (1+) | 10.3 | 5.5 | 2.8 | 11.7 | 8.6 | 4.8 | 15.6 | 10.2 | 5.6 | 15 | 25 | 15 | | y6 (1+) | 52.5 | 12.4 | 11.3 | 65.6 | 12.9 | 16.5 | 84 | 17.9 | 20 | 15 | 25 | 15 | | sum | 11.6 | 5.4 | 2.9 | 15.4 | 8.2 | 4.3 | 19.3 | 9.8 | 5.2 | 15 | 25 | 15 |