PXD023613-1

PXD023613 is an original dataset announced via ProteomeXchange.

Title	Minute-scale proteomics with Scanning SWATH and high-flow chromatography
Description	Great advances have been made to quantify proteomes at depth and high precision. However, the inherent complexity of the proteome still creates huge challenges to deal with large sample series and longitudinal experiments. Here we report a data-independent acquisition (DIA) method, Scanning SWATH, and new software algorithms, that combine the advantages of data-dependent and DIA acquisition. Exploiting a continuous movement of the precursor isolation window to assign precursor mass to the MS2 fragment traces, Scanning SWATH increases the precursor identifications of up to 70% compared to conventional DIA methods on 1-5 minute chromatographic gradients. Moreover, we achieve significant acceleration of the mass spectrometric duty cycles, facilitating the generation of quantitative precise proteomes with high-flow (800 µL/min) chromatography and gradients that can be as fast as 30 seconds. We demonstrate the application of ultra-fast proteomics in drug mode-of-action screening. Scanning SWATH proteomes capture the mode-of-action of azoles and statins acting as fungistatic drugs.
HostingRepository	PRIDE
AnnounceDate	2021-03-02
AnnouncementXML	Submission_2021-03-02_07:54:20.948.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Christoph Messner
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	iodoacetamide derivatized residue
Instrument	TripleTOF 6600

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-15 06:24:23	ID requested
⏵ 1	2021-03-02 07:54:21	announced
2	2021-03-29 02:53:27	announced	2021-03-29: Updated publication reference for PubMed record(s): 33767396.

Dataset with its publication pending

submitter keyword: High-throughput, Scanning SWATH, data-independent acquisition, high-flow chromatography, drug screen

Markus Ralser
contact affiliation	Charité Universitätsmedizin Berlin, Department of Biochemistry, Berlin, Germany
contact email	markus.ralser@charite.de
lab head
Christoph Messner
contact affiliation	Francis Crick Institute
contact email	christoph.messner@crick.ac.uk
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/2021/03/PXD023613

PRIDE project URI

• PRIDE
  1. PXD023613
     1. Label: PRIDE project
     2. Name: Minute-scale proteomics with Scanning SWATH and high-flow chromatography