PXD043370

PXD043370 is an original dataset announced via ProteomeXchange.

Title	µPhos: a scalable and sensitive platform for functional phosphoproteomics
Description	Mass spectrometry has revolutionized cell signaling research by vastly simplifying the analysis of many thousands of phosphorylation sites in the human proteome. Defining the cellular response to perturbations in space and time is crucial for further illuminating functionality of the phosphoproteome. Here we describe µPhos (‘microPhos’), an accessible phosphoproteomics platform that permits phosphopeptide enrichment from 96-well cell culture experiments in <8 hours total processing time. By minimizing transfer steps and reducing liquid volumes to <100 µL, we demonstrate increased sensitivity, >90% selectivity, and excellent quantitative reproducibility. Employing highly sensitive trapped ion mobility mass spectrometry, we quantify >30,000 unique phosphopeptides in a human cancer cell line using 20 µg starting material, and confidently localize >10,000 phosphsites from 1 µg. This depth covers key signaling pathways, rendering sample-limited applications and perturbation experiments with hundreds of samples viable as we demonstrate by profiling the time-resolved response of leukemia cells to tyrosine kinase inhibitors.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:43:02.136.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Florian Meier
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	Bruker Daltonics timsTOF series

Revision	Datetime	Status	ChangeLog Entry
0	2023-06-28 08:48:11	ID requested
1	2024-05-27 19:39:58	announced
⏵ 2	2024-10-22 06:43:02	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: DIA,Phosphoproteomics, method development

Jun-Prof. Florian Meier
contact affiliation	Functional Proteomics Lab, University Clinics Jena, Thuringia, Germany
contact email	Florian.Meier@med.uni-jena.de
lab head
Florian Meier
contact affiliation	Jena University Hospital
contact email	florian.meier@med.uni-jena.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/2024/05/PXD043370

PRIDE project URI

• PRIDE
  1. PXD043370
     1. Label: PRIDE project
     2. Name: µPhos: a scalable and sensitive platform for functional phosphoproteomics