PXD054800-1

PXD054800 is an original dataset announced via ProteomeXchange.

Title	Global RNA-Protein Interactome purification screening identifies RRP1 in IL-1-stimulated BMDM cells
Description	An “unbiased” approach that holds promise for isolating total protein-RNA complexes from whole cell samples without any labeling and identifying RBPs that lack classical RNA-binding domains (RBDs) or that bind different RNA classes is greatly needed. On the other hand, due to the scarcity of primary cells and the difficulty of RNA labeling, few studies have utilized these techniques to identify RBPs in primary cells, resulting in a shortage of information on the role of RBP-RNA interactions and their function in regulating pathogenesis. In recent years, an unbiased “Phase Separation-based RNA-protein complex-capture” approach has been proposed to analyze whole cell RNA-RBP interactions. This approach is based on the concept that crosslinked global protein-RNA complexes in total cell samples will separate into the insoluble interphase during RNA extraction with acid guanidinium thiocyanate-phenol-chloroform. Based on this approach, here we first developed a modified RNA-protein complex-capture method (GRPIp) in primary bone marrow derived macrophages (BMDMs), and then we utilized GRPIp to profile the dynamic landscape of RNA-binding proteome in BMDMs upon IL-1β stimulation.
HostingRepository	PRIDE
AnnounceDate	2025-07-04
AnnouncementXML	Submission_2025-07-04_06:31:16.972.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zhou Yumei
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2024-08-12 01:26:20	ID requested
⏵ 1	2025-07-04 06:31:17	announced

Dataset with its publication pending

submitter keyword: RNA-binding protein

primary macrophages

IL-1

Yumei Zhou
contact affiliation	Department of Immunology, Center for Immunotherapy, Peking Union Medical College, Chinese Academy of Medical Sciences
contact email	bluesoft039@163.com
lab head
Zhou Yumei
contact affiliation	Suzhou Institute of Systems Medicine, Chinese Academy of Medical Sciences,Suzhou
contact email	bluesoft039@163.com
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/2025/07/PXD054800

PRIDE project URI

• PRIDE
  1. PXD054800
     1. Label: PRIDE project
     2. Name: Global RNA-Protein Interactome purification screening identifies RRP1 in IL-1-stimulated BMDM cells