Dataset Information

ITRAQ LLC-PK1 CnI - Sum of peak intensities outperforms peak area integration in iTRAQ protein expression measurement by LC-MS/MS using a TripleTOF 5600+ platform

ABSTRACT: In the field of quantitative proteomics, the Isobaric Tags for Relative & Absolute Quanti-tation (iTRAQ) technology has demonstrated efficacy for proteome monitoring despite its lack of a consensus for data handling. In this study, after peptide and protein identification, we com-pared the widespread quantitation method based on the calculation of MS/MS reporter ion peaks areas ratios (Protein Pilot) to the alternative method based on the calculation of ratios of the sum of peak intensities (jTRAQx (Quant)) and we processed output data with the in-house Customi-zable iTRAQ Ratios Calculator (CiR-C) algorithm. Quantitation based on peak area ratios dis-played no significant linear correlation with Western blot quantitation. On the contrary, quantita-tion based on the sum of peak intensities displayed a significant linear association with Western blot quantitation (non-zero slope; Pearson correlation coefficient test, r = 0.2962, p = 0.0099 **) with an average bias of 0.08747 ± 0.5004 and 95% Limits of Agreement from - 0.8932 to 1.068. We proposed the Mascot-jTRAQx-CiR-C strategy as a simple yet powerful data processing ad-junct to the iTRAQ technology

INSTRUMENT(S): TripleTOF 5600

ORGANISM(S): Sus Scrofa Domesticus (domestic Pig)

TISSUE(S): Epithelial Cell, Kidney

SUBMITTER: Bastien Burat

LAB HEAD: Marie Essig

PROVIDER: PXD007891 | Pride | 2019-08-19

REPOSITORIES: pride

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Dataset's files

Source:

			Action	DRS
	iTRAQ_serie1_210116A_F1-F12sp.dat	Other
	iTRAQ_serie1_210116A_F1-F12tr.dat	Other
	iTRAQ_serie1_210116A_F10.wiff	Wiff
	iTRAQ_serie1_210116A_F10.wiff.scan	Wiff
	iTRAQ_serie1_210116A_F11.wiff	Wiff

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Sum of peak intensities outperforms peak area integration in iTRAQ protein expression measurement by LC-MS/MS using a TripleTOF 5600+ platform.

Burat Bastien B Gonzalez Julien J Sauvage François-Ludovic FL Aouad Hassan H Arnion Hélène H Pinault Emilie E Marquet Pierre P Essig Marie M

Bioscience reports 20190607 6

In the field of quantitative proteomics, the Isobaric Tags for Relative and Absolute Quantitation (iTRAQ) technology has demonstrated efficacy for proteome monitoring despite its lack of a consensus for data handling. In the present study, after peptide and protein identification, we compared the widespread quantitation method based on the calculation of MS/MS reporter ion peaks areas ratios (ProteinPilot) to the alternative method based on the calculation of ratios of the sum of peak intensitie ...[more]

PMID: 31110078

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