PXD009624

PXD009624 is an original dataset announced via ProteomeXchange.

Title	Characterization of cerebrospinal fluid via data-independent acquisition mass spectrometry
Description	Cerebrospinal fluid (CSF) is in direct contact with the brain and serves as a valuable specimen to examine neurodegenerative diseases in order to identify suitable diagnostic biomarkers. In the field of neuroproteomics the most popular mass spectrometry-based strategy for biomarker discovery studies is data-dependent acquisition (DDA). Drawbacks of this method are stochastic and irreproducible precursor ion selection. Recently, data-independent acquisition (DIA) emerged as an alternative method. In this study we evaluate the use of DIA for native CSF analytics with particular focus on spectral library generation for data analysis, DIA data reproducibility and identification of brain specific proteins.
HostingRepository	PRIDE
AnnounceDate	2018-09-17
AnnouncementXML	Submission_2018-09-17_03:35:37.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD009624
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Katalin Barkovits
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	residues isobaric at 128.058578 Da; Oxidation; Carbamidomethyl
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-04-27 05:58:05	ID requested
⏵ 1	2018-09-17 03:35:38	announced

Barkovits K, Linden A, Galozzi S, Schilde L, Pacharra S, Mollenhauer B, Stoepel N, Steinbach S, May C, Uszkoreit J, Eisenacher M, Marcus K, Characterization of Cerebrospinal Fluid via Data-Independent Acquisition Mass Spectrometry. J Proteome Res, 17(10):3418-3430(2018) [pubmed]

curator keyword: Biological

submitter keyword: data-independent acquisition, cerebrospinal fluid, spectral library, LC-MS

Katrin Marcus
contact affiliation	Ruhr-Universität Bochum Medizinisches Proteom-Center Raum 1.055 Universitätsstraße 150 44801 Bochum Germany
contact email	katrin.marcus@rub.de
lab head
Katalin Barkovits
contact affiliation	Ruhr University Bochum
contact email	katalin.barkovits@rub.de
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/2018/09/PXD009624

PRIDE project URI

• PRIDE
  1. PXD009624
     1. Label: PRIDE project
     2. Name: Characterization of cerebrospinal fluid via data-independent acquisition mass spectrometry