PXD006934

PXD006934 is an original dataset announced via ProteomeXchange.

Title	Comparative analyses of data independent acquisition mass spectrometric approaches: DIA, WiSIM-DIA and directDIA
Description	With a multitude of DIA approaches developed recently, many of their features are not yet well explored. In this study we make use of a biologically relevant sample, the synaptosome, as a model to compare the spectral libraries generated by (1) DDA solely on Orbitrap (OT), (2) Orbitrap for MS1 scan and ion trap for MS/MS acquisition (IT), and (3) directDIA derived from DIA data. Next, we compared the number of spectral library features recovered, and quality of quantification, by DIA and WiSIM-DIA, and suggest future improvement.
HostingRepository	PRIDE
AnnounceDate	2017-11-20
AnnouncementXML	Submission_2017-11-20_06:09:44.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Frank Koopmans
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	methylthiolated residue; monohydroxylated residue; acetylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2017-07-11 04:35:59	ID requested
⏵ 1	2017-11-20 06:09:45	announced

Koopmans F, Ho JTC, Smit AB, Li KW, Comparative Analyses of Data Independent Acquisition Mass Spectrometric Approaches: DIA, WiSIM-DIA, and Untargeted DIA. Proteomics, 18(1):(2018) [pubmed]

curator keyword: Technical

submitter keyword: LC-MS/MS, DDA, DIA, WiSIM-DIA, WiSIM, directDIA

Ka Wan Li
contact affiliation	Department of Molecular and Cellular Neurobiology, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU Amsterdam, Amsterdam, The Netherlands
contact email	k.w.li@vu.nl
lab head
Frank Koopmans
contact affiliation	VU University
contact email	frank.koopmans@vu.nl
dataset submitter

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.pride.ebi.ac.uk/pride/data/archive/2017/11/PXD006934

PRIDE project URI

• PRIDE
  1. PXD006934
     1. Label: PRIDE project
     2. Name: Comparative analyses of data independent acquisition mass spectrometric approaches: DIA, WiSIM-DIA and directDIA