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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.

Overview Data source: UniProt

Official Gene Symbol Other Aliases
IDH1 PICD
Sequence Length (AA) Molecular Weight (Da)
414 46659
Protein Name
Isocitrate dehydrogenase [NADP] cytoplasmic
Sources
UniProt
PhosphoSitePlus ®
GeneCards
Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MSKKISGGSV VEMQGDEMTR IIWELIKEKL IFPYVELDLH SYDLGIENRD
60 70 80 90 100
ATNDQVTKDA AEAIKKHNVG VKCATITPDE KRVEEFKLKQ MWKSPNGTIR
110 120 130 140 150
NILGGTVFRE AIICKNIPRL VSGWVKPIII GRHAYGDQYR ATDFVVPGPG
160 170 180 190 200
KVEITYTPSD GTQKVTYLVH NFEEGGGVAM GMYNQDKSIE DFAHSSFQMA
210 220 230 240 250
LSKGWPLYLS TKNTILKKYD GRFKDIFQEI YDKQYKSQFE AQKIWYEHRL
260 270 280 290 300
IDDMVAQAMK SEGGFIWACK NYDGDVQSDS VAQGYGSLGM MTSVLVCPDG
310 320 330 340 350
KTVEAEAAHG TVTRHYRMYQ KGQETSTNPI ASIFAWTRGL AHRAKLDNNK
360 370 380 390 400
ELAFFANALE EVSIETIEAG FMTKDLAACI KGLPNVQRSD YLNTFEFMDK
410 414
LGENLKIKLA QAKL

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-3715 Collapse assay details

Data source: Panorama

Official Gene Symbol
Idh1
Peptide Sequence
GLPNVQR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
382
Peptide End
388
CPTAC ID
non-CPTAC-3715
Peptide Molecular Mass
782.4399
Species
Mus musculus (Mouse)
Assay Type
Direct PRM
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 CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y3 (2+) 104.8 110.8 132.3 146.1 121.1 81.8 179.8 164.1 155.5 15 15 15
y6 (2+) 34.3 20.1 18.6 39.9 22.5 18.3 52.6 30.2 26.1 15 15 15
y3 (1+) 7.3 4.3 3.5 11 5.6 4.4 13.2 7.1 5.6 15 15 15
y4 (1+) 8.1 2.4 2.3 13 3.4 3.3 15.3 4.2 4 15 15 15
y5 (1+) 6.6 2.2 2.6 15.2 4.7 3.5 16.6 5.2 4.4 15 15 15
sum 4.8 1.7 1.6 12.7 4 2.9 13.6 4.3 3.3 15 15 15


Additional Resources and Comments


Assay Details for CPTAC-2741 Collapse assay details

Data source: Panorama

Official Gene Symbol
IDH1
Peptide Sequence
VEITYTPSDGTQK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
152
Peptide End
164
CPTAC ID
CPTAC-2741
Peptide Molecular Mass
1,437.6987
Species
Homo Sapiens
Assay Type
Direct PRM
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 K
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

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
y10 (1+) 8.1 3.3 5.4 8 4.5 7.3 11.4 5.6 9.1 15 15 15
y8 (1+) 5 3.1 4.8 5.4 3.4 8.1 7.4 4.6 9.4 15 15 15
y7 (1+) 4.4 2.1 6.1 5.2 3 7.3 6.8 3.7 9.5 15 15 15
sum 3.6 2.3 5.4 4.6 2.8 7.1 5.8 3.6 8.9 15 15 15


Additional Resources and Comments