PXD001506

PXD001506 is an original dataset announced via ProteomeXchange.

Title	Evaluation of iTRAQ and SWATH-MS for the quantification of proteins associated with insulin resistance in human duodenal biopsy samples
Description	Insulin resistance (IR) is associated with increased production of triglyceride-rich lipoproteins of intestinal origin. In order to assess whether insulin resistance affects the proteins involved in lipid metabolism, we used two mass spectrometry based quantitative proteomics techniques to compare the intestinal proteome of 14 IR patients to that of 16 insulin sensitive (IS) control patients matched for age and waist circumference. A total of 3896 proteins were identified by the iTRAQ (Isobaric Tags for Relative and Absolute Quantitation) mass spectrometry approach and 2311 by the SWATH-MS strategy (Serial Window Acquisition of Theoretical Spectra). Using these two methods, 208 common proteins were identified with a confidence corresponding to FDR < 1%, and quantified with p-value < 0.05. The quantification of those 208 proteins has a Pearson correlation coefficient (r2) of 0.728 across the two techniques. Gene Ontology analyses of the differentially expressed proteins revealed that annotations related to lipid metabolic process and oxidation reduction process are overly represented in the set of under-expressed proteins in IR subjects. Furthermore, both methods quantified proteins of relevance to IR. These data also showed that SWATH-MS is a promising and compelling alternative to iTRAQ for protein quantitation of complex mixtures.
HostingRepository	PRIDE
AnnounceDate	2015-08-26
AnnouncementXML	Submission_2015-08-26_03:53:27.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD001506
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Frederic Fournier
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	Oxidation; Carbamidomethyl
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2014-11-18 02:49:39	ID requested
⏵ 1	2015-08-26 03:53:28	announced

Bourassa S, Fournier F, Nehm, é B, Kelly I, Tremblay A, Lemelin V, Lamarche B, Couture P, Droit A, Evaluation of iTRAQ and SWATH-MS for the Quantification of Proteins Associated with Insulin Resistance in Human Duodenal Biopsy Samples. PLoS One, 10(5):e0125934(2015) [pubmed]

curator keyword: Biomedical, Technical

submitter keyword: Human duodenum, SWATH-MS, iTRAQ, quantitative proteomics

Arnaud Droit
contact affiliation	Proteomics Center and Department of Molecular Medicine, CHUQ Research Center, Laval University, Quebec
contact email	Arnaud.Droit@crchuq.ulaval.ca
lab head
Frederic Fournier
contact affiliation	Laval University - CHU de Quebec Research Center
contact email	frederic.fournier@crchuq.ulaval.ca
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD001506
     1. Label: PRIDE project
     2. Name: Evaluation of iTRAQ and SWATH-MS for the quantification of proteins associated with insulin resistance in human duodenal biopsy samples