PXD041369-2

PXD041369 is an original dataset announced via ProteomeXchange.

Title	A chemoproteomics approach to discover regulators of innate immune signaling
Description	Viral dsRNA binds to Retinoic acid Inducible Gene I (RIG-I) Like Receptors (RLRs), promoting the production of Interferon (IFN). Interferon then stimulates the innate and adaptive immune system in an autocrine and paracrine manner. Outside of conical pathways, regulators of the interferon (IFN) activation/response system are poorly characterized. In this study, we used a discovery-biased approach to identify Kinases that are part of the interferon system. Differential changes in phosphorylation sites, in the context of dsRNA RIG-I stimulation, were identified with unbiased mass-spec biased phospho-proteomics. We then computationally identified several Kinases upregulated after RIG-I stimulation from phospho-proteomics data. A Chemoproteomics screen was then used to characterize the altered interferon response in the presence of Kinases inhibitors for the upregulated kinases. Combining unbiased phosphoproteomics with a chemoproteomics screen, we identified several potentially novel regulators of the Interferon system whose inhibition blocked the production of Interferon Stimulated Genes.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:48:38.292.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jeffrey Johnson
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2023-04-05 23:25:30	ID requested
1	2023-06-02 14:41:39	announced
⏵ 2	2023-11-14 08:48:40	announced	2023-11-14: Updated project metadata.
3	2024-10-22 05:46:31	announced	2024-10-22: Updated project metadata.

Kurland AP, Bonaventure B, Johnson JR, A Chemical Proteomics Approach to Discover Regulators of Innate Immune Signaling. Viruses, 15(5):(2023) [pubmed]

submitter keyword: ATR, ATM, interferon, AMPK, signaling pathways,proteomics

phosphoproteomics, kinases, PLK1, RIG-I

Jeffrey R. Johnson
contact affiliation	Microbiology department at Icahn School of Medicine at Mount Sinai
contact email	jeffrey.johnson@mssm.edu
lab head
Jeffrey Johnson
contact affiliation	Icahn School of Medicine at Mount Sinai
contact email	jeffrey.johnson@mssm.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/2023/06/PXD041369

PRIDE project URI

• PRIDE
  1. PXD041369
     1. Label: PRIDE project
     2. Name: A chemoproteomics approach to discover regulators of innate immune signaling