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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.

NSFL1C

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
NSFL1C UBXN2C
Sequence Length (AA) Molecular Weight (Da)
370 40573
Protein Name
NSFL1 cofactor p47
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MAAERQEALR EFVAVTGAEE DRARFFLESA GWDLQIALAS FYEDGGDEDI
60 70 80 90 100
VTISQATPSS VSRGTAPSDN RVTSFRDLIH DQDEDEEEEE GQRFYAGGSE
110 120 130 140 150
RSGQQIVGPP RKKSPNELVD DLFKGAKEHG AVAVERVTKS PGETSKPRPF
160 170 180 190 200
AGGGYRLGAA PEEESAYVAG EKRQHSSQDV HVVLKLWKSG FSLDNGELRS
210 220 230 240 250
YQDPSNAQFL ESIRRGEVPA ELRRLAHGGQ VNLDMEDHRD EDFVKPKGAF
260 270 280 290 300
KAFTGEGQKL GSTAPQVLST SSPAQQAENE AKASSSILID ESEPTTNIQI
310 320 330 340 350
RLADGGRLVQ KFNHSHRISD IRLFIVDARP AMAATSFILM TTFPNKELAD
360 370
ESQTLKEANL LNAVIVQRLT

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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All other points link out to UniProt


Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-101 Collapse assay details

Data source: Panorama

Official Gene Symbol
NSFL1C
Peptide Sequence
DLIHDQDEDEEEEEGQR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
77
Peptide End
93
CPTAC ID
CPTAC-101
Peptide Molecular Mass
2,084.8407
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,15N
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

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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
y8 (1+) 17.9 12.9 8.5 33.3 21.6 21.8 37.8 25.2 23.4 15 25 15
y7 (1+) 8.1 8.1 6.7 10.4 8.9 7.7 13.2 12 10.2 15 25 15
y5 (1+) 7 7.4 5.3 10.3 8.5 6.3 12.5 11.3 8.2 15 25 15
sum 4.5 6.8 4.7 10.2 6.9 5.9 11.1 9.7 7.5 15 25 15

Selectivity

Data source: Panorama

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Slope of Curve Fit for cell line
fragment_ion HCC1187 HCC1419 HCC1954 HCC70 MCF12A MDAMB175VII ZR751 ZR7530
y7 (1+) -0.19 -0.28 -0.08 -0.4 -0.35 -0.16 -0.49 -0.07
y5 (1+) -0.23 -0.35 -0.01 -0.37 -0.32 -0.15 -0.67 -0.08
y8 (1+) -0.05 -0.03 -0.04 -0.32 -0.13 -0.02 0.02 -0
sum -0.2 -0.28 -0.03 -0.38 -0.31 -0.12 -0.48 -0.07

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
Fragment ion / Transition all_intra_CV all_inter_CV

Endogenous

Data source: Panorama

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Fragment ion / Transition intra_CV inter_CV total_CV
y8 (1+) 12.9 21 24.6
y7 (1+) 7.9 8.8 11.8
y5 (1+) 7.5 8.5 11.3
sum 6.8 6.9 9.7

Additional Resources and Comments

Resources
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Comments

Assay Details for CPTAC-102 Collapse assay details

Data source: Panorama

Official Gene Symbol
NSFL1C
Peptide Sequence
SGFSLDNGELR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
189
Peptide End
199
CPTAC ID
CPTAC-102
Peptide Molecular Mass
1,193.5677
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,15N
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

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
view larger image

Retrieving Data

Loader

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
y8 (1+) 8.4 5.2 3.5 11.5 6 6.2 14.2 7.9 7.1 15 25 15
y7 (1+) 6 6.6 4.3 7.6 7.4 7.5 9.7 9.9 8.6 15 25 15
y6 (1+) 6.8 7.5 3.6 8.9 10.1 4.7 11.2 12.6 5.9 15 25 15
sum 3.1 5.6 3.2 6.7 7.3 4.4 7.4 9.2 5.4 15 25 15

Selectivity

Data source: Panorama

view larger image
Slope of Curve Fit for cell line
fragment_ion HCC1187 HCC1419 HCC1954 HCC70 MCF12A MDAMB175VII ZR751 ZR7530
y6 (1+) -0.8 -1.05 -0.22 -0.92 -1.22 -0.52 -1.52 -0.31
y8 (1+) -0.7 -0.9 -0.18 -0.97 -0.89 -0.47 -1.83 -0.26
y7 (1+) -0.58 -0.82 -0.23 -0.88 -1.12 -0.51 -1.81 -0.32
sum -0.71 -0.94 -0.21 -0.93 -1.07 -0.5 -1.68 -0.3

Stability

Data source: Panorama

view larger image
Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
y6 (1+) 7.2 2.9 1.9 NA 5.2
y8 (1+) 4.9 4 4 NA 1.9
y7 (1+) 8.1 5.6 2.7 NA 7
sum 4.3 2.1 2.8 NA 3.6
Fragment ion / Transition all_intra_CV all_inter_CV
y6 (1+) 4 3.9
y8 (1+) 3.7 4.5
y7 (1+) 5.8 5.1
sum 3 3.3

Endogenous

Data source: Panorama

view larger image
Fragment ion / Transition intra_CV inter_CV total_CV
y8 (1+) 5.3 5.9 7.9
y6 (1+) 7.6 9.9 12.5
y7 (1+) 6.7 7.4 10
sum 5.7 7.2 9.2

Additional Resources and Comments

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

Assay Details for non-CPTAC-3852 Collapse assay details

Data source: Panorama

Official Gene Symbol
Nsfl1c
Peptide Sequence
TGFSLDNGDLR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
189
Peptide End
199
CPTAC ID
non-CPTAC-3852
Peptide Molecular Mass
1,193.5677
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
>80%
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

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
view larger image

Retrieving Data

Loader

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+) 22.9 8.1 6.5 25.5 8.8 7.3 34.3 12 9.8 15 15 15
y8 (1+) 8.7 7.4 6.1 16.5 10 9.2 18.7 12.4 11 15 15 15
y9 (2+) 43.9 7.6 9.9 38.7 11.7 10.1 58.5 14 14.1 15 15 15
y2 (1+) 12.8 6.2 8.5 13.6 10.4 8.2 18.7 12.1 11.8 15 15 15
y6 (1+) 20.1 9.1 6.7 20.7 11.6 10.1 28.9 14.7 12.1 15 15 15
sum 12.3 4.4 2.5 13.9 7.2 5.8 18.6 8.4 6.3 15 15 15

Additional Resources and Comments

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