PXD016469

PXD016469 is an original dataset announced via ProteomeXchange.

Title	Protein ADP-ribosylation, phosphorylation, and interactome dynamics in macrophage activation.
Description	The innate immune response relies on efficient, robust and fast protein signaling networks to relay information related to pathogen or viral detection. This communication is mediated primarily through protein-protein interactions and post-translational modifications (PTMs), events which are best characterized by mass spectrometry (MS)-based proteomics. This in-depth study uses MS to identify changes in protein signaling networks of Lipopolysaccharide (LPS)-stimulated human and mouse macrophages, at the level of single PTMs (via phosphorylation and ADP-ribosylation site ID) and protein complexes (via size exclusion chromatography and immunoprecipitation). The result is a curated meta-database of 6,475 proteins including 2,311 ADP-ribosylated proteins and 2,284 phosphoproteins present in LPS-stimulated macrophages. Follow up studies characterized the ASK protein complex – which appeared to dissociate upon LPS stimulation – and a complex which formed upon LPS stimulation and contained the poly(ADP-ribosyl) transferase PARP9 protein.
HostingRepository	PRIDE
AnnounceDate	2021-03-04
AnnouncementXML	Submission_2021-03-04_11:36:29.303.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Casey Daniels
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	denosine diphosphoribosyl (ADP-ribosyl) modified residue
Instrument	Q Exactive HF; Velos Plus

Revision	Datetime	Status	ChangeLog Entry
0	2019-11-27 03:42:50	ID requested
⏵ 1	2021-03-04 11:36:30	announced

Daniels CM, Kaplan PR, Bishof I, Bradfield C, Tucholski T, Nuccio AG, Manes NP, Katz S, Fraser IDC, Nita-Lazar A, Dynamic ADP-Ribosylome, Phosphoproteome, and Interactome in LPS-Activated Macrophages. J Proteome Res, 19(9):3716-3731(2020) [pubmed]

submitter keyword: PARP, ADP-ribosylation, phosphorylation, LPS, macrophage, IMAC, Size Exclusion Chromatography, SEC, interactome, PARP9, ASK2

Aleksandra Nita-Lazar
contact affiliation	Functional Cellular Networks Section Laboratory of Immune System Biology National Institute of Allergy and Infectious Diseases National Institutes of Health
contact email	nitalazarau@niaid.nih.gov
lab head
Casey Daniels
contact affiliation	National Institutes of Health
contact email	cs.dnls@gmail.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/2020/06/PXD016469

PRIDE project URI

• PRIDE
  1. PXD016469
     1. Label: PRIDE project
     2. Name: Protein ADP-ribosylation, phosphorylation, and interactome dynamics in macrophage activation.