PXD003344-1

PXD003344 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry
Description	In this study, targeted parallel reaction monitoring assays for phosphopeptides were configured by mining data from large-scale experiments. The capabilities of the method were assessed by performing several benchmarking experiments. The accuracy of retention time prediction using a large-scale database was assessed by using BSA peptides or human phosphopeptides to predict the retention time of distinct peptides in a subsequent run. Data-driven phosphopeptide sequence and charge state was compared to heuristics-based selection using unscheduled PRM assays. Phosphoproteome analysis was performed in technical quadruplicate using parallel reaction monitoring, data-independent acquisition, and data-dependent acquisition. A label-free quantitative parallel reaction monitoring experiment was performed on phosphopeptides enriched from cells stimulated -/+ IGF-1 (n=6).
HostingRepository	MassIVE
AnnounceDate	2016-03-27
AnnouncementXML	Submission_2016-03-27_23:43:38.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Robert Lawrence
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	Phospho
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2015-12-14 15:56:33	ID requested
⏵ 1	2016-03-27 23:43:39	announced

Publication List

Robert T. Lawrence, Brian C. Searle, Ariadna Llovet, Judit Villén. Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry. Nature Methods. 2016 Mar. doi: 10.1038/nmeth.3811.

Robert T. Lawrence, Brian C. Searle, Ariadna Llovet, Judit Villén. Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry. Nature Methods. 2016 Mar. doi: 10.1038/nmeth.3811.

Keyword List

submitter keyword: phosphoproteomics, targeted analysis, PRM, DDA, DIA

submitter keyword: phosphoproteomics, targeted analysis, PRM, DDA, DIA

Contact List

Judit Villén
lab head
Robert Lawrence
contact affiliation	University of Washington
contact email	roblaw@uw.edu
dataset submitter

Full Dataset Link List

MassIVE dataset URI
Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/MSV000079423

MassIVE dataset URI

Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/MSV000079423