PXD026190

PXD026190 is an original dataset announced via ProteomeXchange.

Title	Label-free comparative data independent (DIA) nanoLC-MS/MS analysis of protein expression profiles of mouse primary dendritic cells (DC) from B6 mice on normal and high fructose/high fat (HFHF) diet
Description	A diet rich in saturated fat and carbohydrates causes a low-grade chronic inflammation in several organs including nonalcoholic steatohepatitis. The environment-driven lipotocicity and glucotoxicity induce tissue damage, which promotes dendritic cell adjuvanticity, and supports an MHC-class-II immunopeptidome enriched in peptides derived from proteins involved in cellular metabolism, oxidative phosphorylation and molecular cellular responses to oxidative stress. To investigate the impact of metabolic syndrome on the whole cellular proteome of antigen presenting cells (APCs) we isolated six biological replicates consisted of total proteomic extracts DCs lysates from B6 mice on normal and high fructose/high fat (HFHF) diet and employed a quantitative label-free data independent (DIA) nanoLC-MS/MS analysis of redox stress mediated changes in the protein expression profiles in HFHF vs normal diet. The LFQ DIA analysis of cellular proteomics changes induced by HFHF diet in the DCs highlighted the involvement of proteins associated with cellular pathways involved in lipid and carbohydrate metabolism, oxidative phosphorylation, cell death and inflammation. Altogether depicting an image of cells under metabolic and oxidative stress with up-regulated inflammatory pathways.
HostingRepository	PRIDE
AnnounceDate	2022-08-22
AnnouncementXML	Submission_2022-08-22_11:53:04.726.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD026190
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Cristina Clement
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2021-05-21 04:15:02	ID requested
⏵ 1	2022-08-22 11:53:05	announced

Clement CC, Osan J, Buque A, Nanaware PP, Chang YC, Perino G, Shetty M, Yamazaki T, Tsai WL, Urbanska AM, Calvo-Calle JM, Ramsamooj S, Ramsamooj S, Vergani D, Mieli-Vergani G, Terziroli Beretta-Piccoli B, Gadina M, Montagna C, Goncalves MD, Sallusto F, Galluzzi L, Soni RK, Stern LJ, Santambrogio L, PDIA3 epitope-driven immune autoreactivity contributes to hepatic damage in type 2 diabetes. Sci Immunol, 7(74):eabl3795(2022) [pubmed]

submitter keyword: mouse dendritic cells (CD11c+) proteomics

DIA/DDA nano LC-MS/MS;Orbitrap Fusion Tribrid mass spectrometer

Laura Santambrogio; Cristina C Clement
contact affiliation	Englander Institute of Precision Medicine Department of Radiation Oncology Weill Cornell Medicine 1300 York Avenue E209 New York, NY 10065
contact email	las4011@med.cornell.edu
lab head
Cristina Clement
contact affiliation	Weill Cornell Medicine
contact email	ccc4002@med.cornell.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/2022/08/PXD026190

PRIDE project URI

• PRIDE
  1. PXD026190
     1. Label: PRIDE project
     2. Name: Label-free comparative data independent (DIA) nanoLC-MS/MS analysis of protein expression profiles of mouse primary dendritic cells (DC) from B6 mice on normal and high fructose/high fat (HFHF) diet