PXD036543-1

PXD036543 is an original dataset announced via ProteomeXchange.

Title	Reduction of MRM protein target list using correlation analysis
Description	High mass resolution mass spectrometry provides hundreds to thousands of protein identifications per sample, and quantification is typically performed using label-free quantification. However, the gold standard of quantitative proteomics is multiple reaction monitoring (MRM) using triple quadrupole mass spectrometers and stable isotope reference peptides. This raises the question how to reduce a large data set to a small one without losing essential information. Here we present the reduction of such a data set using correlation analysis of bovine dairy ingredients and derived products. We were able to explain the variance in the proteomics data set using only 9 proteins across all major dairy protein classes: caseins, whey, and milk fat globule membrane proteins. We term this method Trinity-MRM. The reproducibility of the protein extraction and Trinity-MRM methods was shown to be below 5% in independent experiments (multi-day single-user and single-day multi-user) using double cream. Further application of this reductionist approach might include screening of large sample cohorts for biologically interesting samples before analysis by high-resolution mass spectrometry or other omics methodologies.
HostingRepository	PanoramaPublic
AnnounceDate	2022-09-06
AnnouncementXML	Submission_2022-09-06_08:42:02.539.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Holger Ebhardt
SpeciesList	scientific name: Bos taurus; NCBI TaxID: 9913;
ModificationList	Label:13C(6)15N(2); Label:13C(6)15N(4)
Instrument	6495A Triple Quadrupole LC/MS

Revision	Datetime	Status	ChangeLog Entry
0	2022-09-05 14:50:40	ID requested
⏵ 1	2022-09-06 08:42:03	announced

Ebhardt HA, Ponchon P, Theodosiadis K, Fuerer C, Courtet-Compondu MC, O'Regan J, Affolter M, Joubran Y, Reduction of multiple reaction monitoring protein target list using correlation analysisa. J Dairy Sci, 105(9):7216-7229(2022) [pubmed]

submitter keyword: dairy, quantitative proteomics, correlation analysis, MRM, MFGM

Holger Ebhardt
contact affiliation	Nestlé Development Centre Nutrition, Askeaton, County Limerick, Ireland
contact email	holger.ebhardt@rd.nestle.com
lab head
Holger Ebhardt
contact affiliation	Nestlé Development Centre Nutrition, Askeaton, County Limerick, Ireland
contact email	holger.ebhardt@rd.nestle.com
dataset submitter

Panorama Public dataset URI