PXD001745

PXD001745 is an original dataset announced via ProteomeXchange.

Title	Automated Absolute and Relative Quantification of SRM Data
Description	Selected reaction monitoring (SRM) MS is a highly selective and , sensitive technique to quantify protein abundances in complex biological samples. SRM analyses are well supported by state-of-the-art software for both interactive data analysis (e.g., Skyline) and statistical validation of acquired data (e.g., mProphet). However, at present, there is no validated approach to automate the estimation of absolute protein quantities, and manual evaluation, which is widely used, is inherently biased and error-prone. Here, we present Ariadne, a Matlab® software solution supporting automated absolute and relative quantification of SRM data. Ariadne quantifies the targeted peptides listed in the transition lists. If an mProphet output is available for the current experiment, targets can also be filtered according to its statistical validation. Signal processing and statistical learning approaches are combined to provide relative ? and, if requested, absolute ? peptide quantifications. In order to robustly estimate absolute abundances, the external calibration curve method is applied ensuring linearity over the dynamic range.
HostingRepository	PeptideAtlas
AnnounceDate	2015-01-29
AnnouncementXML	Submission_2015-01-29_13:03:56.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Sandra Goetze
SpeciesList	scientific name: Drosophila melanogaster; NCBI TaxID: 7227;
ModificationList	6x(13)C,4x(15)N labeled L-arginine; 6x(13)C,2x(15)N labeled L-lysine
Instrument	TSQ Vantage

Revision	Datetime	Status	ChangeLog Entry
0	2015-01-28 15:26:05	ID requested
⏵ 1	2015-01-29 13:03:57	announced

Unpublished

curator keyword: selected reaction monitoring, SRM, targeted

Sandra Goetze
contact affiliation	University of Zurich
contact email	sgoetze@ethz.ch
dataset submitter
Erich Brunner
contact affiliation	University of Zurich
contact email	erich.brunner@imls.uzh.ch
lab head

PeptideAtlas dataset URI

PASSEL experiment URI

PASSEL transition group browser URI