PXD051712-2

PXD051712 is an original dataset announced via ProteomeXchange.

Title	On the utility of ultrafast MS1-only proteomics in drug target discovery studies based on thermal proteome profiling method
Description	Advances in high-throughput high-resolution mass spectrometry and the development of thermal proteome profiling approach (TPP) have made it possible to accelerate a drug target search. Since its introduction in 2014, TPP quickly became a method of choice in chemical proteomics for identifying drug-to-protein interactions on a proteome-wide scale and mapping the pathways of these interactions, thus, further elucidating the unknown mechanisms of action of a drug under study. However, the current TPP implementations based on tandem mass spectrometry (MS/MS), associated with employing lengthy peptide separation protocols and expensive labeling techniques for sample multiplexing limit the scaling of this approach for the ever growing variety of drug-to-proteome combinations at the faster pace. A variety of ultrafast proteomics methods have been developed in the last couple of years. Among them, DirectMS1 provides MS/MS-free quantitative proteome-wide analysis in a minute time scale, thus, opening the way for sample-hungry applications, such as TPP. In this work, we demonstrate the first implementation of the TPP approach using the ultrafast proteome-wide analysis based on DirectMS1. Using a drug topotecan, which is a known topoisomerase I inhibitor, the feasibility of the method for identifying drug targets at the whole proteome level was demonstrated for the ovarian cancer cell line.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_07:00:52.103.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ivan Fedorov
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2024-04-24 11:45:21	ID requested
1	2024-10-07 02:17:24	announced
⏵ 2	2024-10-22 07:00:52	announced	2024-10-22: Updated project metadata.

10.1007/S00216-024-05330-9;

submitter keyword: ultra-short gradient HPLC-MS, thermal proteome profiling, drug targets,chemical proteomics

Gorshkov Mikhail
contact affiliation	V. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, 119334 Moscow, Russia
contact email	mike.gorshkov@gmail.com
lab head
Ivan Fedorov
contact affiliation	V. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, 119334 Moscow, Russia
contact email	fedorov.ii@phystech.edu
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/2024/10/PXD051712

PRIDE project URI

• PRIDE
  1. PXD051712
     1. Label: PRIDE project
     2. Name: On the utility of ultrafast MS1-only proteomics in drug target discovery studies based on thermal proteome profiling method