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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.

EIF4A1

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
EIF4A1 DDX2A, EIF4A
Sequence Length (AA) Molecular Weight (Da)
406 46154
Protein Name
Eukaryotic initiation factor 4A-I
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MSASQDSRSR DNGPDGMEPE GVIESNWNEI VDSFDDMNLS ESLLRGIYAY
60 70 80 90 100
GFEKPSAIQQ RAILPCIKGY DVIAQAQSGT GKTATFAISI LQQIELDLKA
110 120 130 140 150
TQALVLAPTR ELAQQIQKVV MALGDYMGAS CHACIGGTNV RAEVQKLQME
160 170 180 190 200
APHIIVGTPG RVFDMLNRRY LSPKYIKMFV LDEADEMLSR GFKDQIYDIF
210 220 230 240 250
QKLNSNTQVV LLSATMPSDV LEVTKKFMRD PIRILVKKEE LTLEGIRQFY
260 270 280 290 300
INVEREEWKL DTLCDLYETL TITQAVIFIN TRRKVDWLTE KMHARDFTVS
310 320 330 340 350
AMHGDMDQKE RDVIMREFRS GSSRVLITTD LLARGIDVQQ VSLVINYDLP
360 370 380 390 400
TNRENYIHRI GRGGRFGRKG VAINMVTEED KRTLRDIETF YNTSIEEMPL
406
NVADLI

Data source: UniProt

Protein Map Collapse protein map

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-6089 Collapse assay details

Data source: Panorama

Official Gene Symbol
EIF4A1
Peptide Sequence
DQIYDIFQK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
194
Peptide End
202
CPTAC ID
non-CPTAC-6089
Peptide Molecular Mass
1,168.5764
Species
Homo sapiens (Human)
Assay Type
Direct MRM-MS
Matrix
Bovine Serum Albumin
Submitting Laboratory
McGill University
Submitting Lab PI
Christoph H. Borchers, Gerald Batist

Publication

View Details (opens in a new window)

mTORC1-driven protein translation correlates with clinical benefit of capivasertib within a genetically preselected cohort of PIK3CA-altered tumours. Constance A Sobsey, Bjoern C Froehlich, Georgia Mitsa, Sahar Ibrahim, Robert Popp, Rene P Zahedi, Elza C de Bruin, Christoph H Borchers, Gerald Batist

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
Agilent 6495B QQQ-MS
Internal Standard
Standard Isotope labeled internal standard peptides with 13Cx, 15Ny (R+10 or K+8)
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Infinity 1290
Column Packing
commercial (Agilent ZORBAX Eclipse Plus C18)
Column Dimensions
4.6 mm × 150 mm, (5 µm)
Flow Rate
0.4 mL/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  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
b2 (1+) 6.6 4 4.4 5.1 3.4 4.7 8.3 5.2 6.4 16 16 17
b3 (1+) 9.5 2.6 3.3 5.9 2.9 3.6 11.2 3.9 4.9 16 16 17
y5 (1+) 11.1 3.4 3.6 10.6 2.4 3.7 15.3 4.2 5.2 16 16 17
y6 (1+) 6.9 3.8 2.5 6.4 3.1 3.3 9.4 4.9 4.1 16 16 17
y7 (1+) 7 3.5 2.5 6.4 3.3 2.2 9.5 4.8 3.3 16 16 17
sum 5.1 1.7 1.7 2.3 1.6 1.7 5.6 2.3 2.4 16 16 17

Stability

Data source: Panorama

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Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
b2 (1+) 7.4 4 3.6 2.8 4.3
b3 (1+) 3.8 6.6 3.3 3.5 4
y5 (1+) 5.1 2 2.6 2.5 2.5
y6 (1+) 2.1 4.9 3.3 2 4.3
y7 (1+) 4.8 4.3 4.2 4.5 1.6
sum 3.6 2.8 2.5 1.4 0.6
Fragment ion / Transition all_intra_CV all_inter_CV
b2 (1+) 4.4 4.5
b3 (1+) 4.6 4.4
y5 (1+) 2.8 3.9
y6 (1+) 3.6 3
y7 (1+) 4 4.6
sum 2.3 2.5

Endogenous

Data source: Panorama

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Fragment ion / Transition intra_CV inter_CV total_CV
b2 (1+) 28.3 31.3 42.2
b3 (1+) 22.5 50.2 55
y5 (1+) 126.3 108.7 166.6
y6 (1+) 1.1 23.7 23.7
y7 (1+) 25.2 37.4 45.1
sum 17.2 27.2 32.2

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments

Assay Details for non-CPTAC-3823 Collapse assay details

Data source: Panorama

Official Gene Symbol
Eif4a1
Peptide Sequence
DQIYDIFQK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
194
Peptide End
202
CPTAC ID
non-CPTAC-3823
Peptide Molecular Mass
1,168.5764
Species
Mus musculus (Mouse)
Assay Type
Direct MRM-MS
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
>80%
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

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

view larger image
  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
y7 (1+) 4.1 1.4 1.4 11.8 11.7 9.3 12.5 11.8 9.4 15 15 15
y6 (1+) 3.8 1.9 1.7 7.1 10.7 9.6 8.1 10.9 9.7 15 15 15
y5 (1+) 17.1 2.8 2.8 27 10 9.1 32 10.4 9.5 15 15 15
b2 (1+) 4.4 1.7 1.3 10.6 12.4 8.6 11.5 12.5 8.7 15 15 15
b3 (1+) 9.2 2.7 2.2 15.2 11.4 10.3 17.8 11.7 10.5 15 15 15
sum 2.1 1 0.8 10.4 11.5 9.1 10.6 11.5 9.1 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments