PXD011449

PXD011449 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Data-independent Acquisition for the orbitrap. A tutorial.
Description	Data-independent acquisition (DIA) is a powerful mass spectrometric technique to perform both protein identification and quantification of complex protein samples. Setting up DIA methods on Orbitrap analyzers requires a thorough overview over the actions the Orbitrap mass spectrometers carry out. This tutorial is written with the intention to give an overview over the important parameters to consider as well as which measurements to carry out to get the most out of your DIA method when setting it up on an Orbitrap mass analyzer. Instead of giving the optimal DIA settings, all steps in the construction and optimization of the DIA method are shown and discussed in a way that allow tailored DIA methods. Key steps are: building the spectral library after sample fractionation, decide upon the number of data points per chromatographic peak, determine scan times of each mass spectrometric step, construct various DIA methods using these data and evaluate their performance. This proposed DIA method development strategy was tested on digested lysates from Pseudomonas Aeruginosa and compared to conventional DDA analysis to put the DIA results in a perspective.
HostingRepository	jPOST
AnnounceDate	2019-08-09
AnnouncementXML	Submission_2022-09-18_02:23:06.326.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Michael Sweredoski
SpeciesList	scientific name: Pseudomonas aeruginosa; NCBI TaxID: 287;
ModificationList	S-carboxamidomethyl-L-cysteine; alpha-amino acetylated residue; L-methionine sulfoxide
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2018-10-22 16:41:09	ID requested
1	2019-08-09 13:15:32	announced
2	2021-02-04 17:09:42	announced	2021-02-04: Updated FTP location.
⏵ 3	2022-09-18 02:23:07	announced	2022-09-18: Updated FTP location.

Publication List

Reubsaet L, Sweredoski MJ, Moradian A, Data-Independent Acquisition for the Orbitrap Q Exactive HF: A Tutorial. J Proteome Res, 18(3):803-813(2019) [pubmed]

Reubsaet L, Sweredoski MJ, Moradian A, Data-Independent Acquisition for the Orbitrap Q Exactive HF: A Tutorial. J Proteome Res, 18(3):803-813(2019) [pubmed]

Keyword List

submitter keyword: Data-independent acquisition, method development strategy, actual scan times, orbitrap mass analyser

submitter keyword: Data-independent acquisition, method development strategy, actual scan times, orbitrap mass analyser

Contact List

Léon Reubsaet
lab head
Michael Sweredoski
contact affiliation	California Institute of Technology
dataset submitter

Full Dataset Link List

jPOST 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://ftp.jpostdb.org/JPST000509/

jPOST 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://ftp.jpostdb.org/JPST000509/