LDHA, CPTAC-91 - 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
CPTAC-91: View additional DQLIYNLLK data
CPTAC-2749: View additional LVIITAGAR data
CPTAC-2750: View additional VTLTSEEEAR data
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MATLKDQLIY | NLLKEEQTPQ | NKITVVGVGA | VGMACAISIL | MKDLADELAL |
| 60 | 70 | 80 | 90 | 100 |
| VDVIEDKLKG | EMMDLQHGSL | FLRTPKIVSG | KDYNVTANSK | LVIITAGARQ |
| 110 | 120 | 130 | 140 | 150 |
| QEGESRLNLV | QRNVNIFKFI | IPNVVKYSPN | CKLLIVSNPV | DILTYVAWKI |
| 160 | 170 | 180 | 190 | 200 |
| SGFPKNRVIG | SGCNLDSARF | RYLMGERLGV | HPLSCHGWVL | GEHGDSSVPV |
| 210 | 220 | 230 | 240 | 250 |
| WSGMNVAGVS | LKTLHPDLGT | DKDKEQWKEV | HKQVVESAYE | VIKLKGYTSW |
| 260 | 270 | 280 | 290 | 300 |
| AIGLSVADLA | ESIMKNLRRV | HPVSTMIKGL | YGIKDDVFLS | VPCILGQNGI |
| 310 | 320 | 330 | 332 | |
| SDLVKVTLTS | EEEARLKKSA | DTLWGIQKEL | QF |
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-91 Collapse assay details
Data source: Panorama
Official Gene Symbol
LDHA
Peptide Sequence
DQLIYNLLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
6
Peptide End
14
CPTAC ID
CPTAC-91
Peptide Molecular Mass
1,118.6336
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
cell line lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich
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
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 K
LC
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
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 |
| y7 (1+) | 14.6 | 8.4 | 5.7 | 36.1 | 21.3 | 11 | 38.9 | 22.9 | 12.4 | 15 | 25 | 15 |
| y6 (1+) | 13.6 | 7.4 | 4.9 | 33.5 | 19.8 | 11 | 36.2 | 21.1 | 12 | 15 | 25 | 15 |
| y5 (1+) | 18.2 | 7.8 | 5.3 | 34.6 | 20.4 | 10.6 | 39.1 | 21.8 | 11.9 | 15 | 25 | 15 |
| sum | 14.6 | 7.7 | 5.1 | 33.8 | 20.3 | 10.6 | 36.8 | 21.7 | 11.8 | 15 | 25 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-2749 Collapse assay details
Data source: Panorama
Official Gene Symbol
LDHA
Peptide Sequence
LVIITAGAR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
91
Peptide End
99
CPTAC ID
CPTAC-2749
Peptide Molecular Mass
912.5757
Species
Homo Sapiens
Assay Type
Direct MRM
Matrix
Tumor Digest
Submitting Laboratory
Washington University in St. Louis
Submitting Lab PI
Reid Townsend
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
ThermoFisher Q-Exactive
Internal Standard
13 fmol on column
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Easy-nLC 1000 Thermo Scientific
Column Packing
C18
Column Dimensions
75 um x 50 cm
Flow Rate
300 nL/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 (1+) | 9.3 | 5.4 | 8.5 | 9.8 | 5.3 | 9.6 | 13.5 | 7.6 | 12.8 | 15 | 15 | 15 |
| y5 (1+) | 10 | 3.1 | 8.8 | 14 | 5.4 | 10.3 | 17.2 | 6.2 | 13.5 | 15 | 15 | 15 |
| y3 (1+) | 13.1 | 7.1 | 11.6 | 15.6 | 7.6 | 12.4 | 20.4 | 10.4 | 17 | 15 | 15 | 15 |
| sum | 9.4 | 3.7 | 8.7 | 11.5 | 5 | 10 | 14.9 | 6.2 | 13.3 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-2750 Collapse assay details
Data source: Panorama
Official Gene Symbol
LDHA
Peptide Sequence
VTLTSEEEAR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
306
Peptide End
315
CPTAC ID
CPTAC-2750
Peptide Molecular Mass
1,133.5564
Species
Homo Sapiens
Assay Type
Direct MRM
Matrix
Tumor Digest
Submitting Laboratory
Washington University in St. Louis
Submitting Lab PI
Reid Townsend
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
ThermoFisher Q-Exactive
Internal Standard
13 fmol on column
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Easy-nLC 1000 Thermo Scientific
Column Packing
C18
Column Dimensions
75 um x 50 cm
Flow Rate
300 nL/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 |
| y7 (1+) | 5.1 | 3.2 | 6 | 5.1 | 3.6 | 7.1 | 7.2 | 4.8 | 9.3 | 15 | 15 | 15 |
| y4 (1+) | 6.4 | 7.6 | 6.1 | 7.9 | 7.2 | 7 | 10.2 | 10.5 | 9.3 | 15 | 15 | 15 |
| y3 (1+) | 13.8 | 6.5 | 10 | 16 | 8.6 | 10.8 | 21.1 | 10.8 | 14.7 | 15 | 15 | 15 |
| sum | 5.4 | 3.6 | 5.6 | 5.7 | 3.8 | 6.8 | 7.9 | 5.2 | 8.8 | 15 | 15 | 15 |