PXD036591

PXD036591 is an original dataset announced via ProteomeXchange.

Title	Isobaric labeling-based quantitative proteomics of cells purified from the intestine of Crohn’s disease patients reveals immune cell-epithelial cell crosstalk of potential importance in disease pathogenesis
Description	Crohn's disease (CD) is a chronic condition characterized by recurrent flares of inflammation of the gastrointestinal tract. Despite decades of research, the etiology of CD is poorly understood and is characterized by dysregulated immune activation that progressively destroys the gastrointestinal tissue. At the center of the pathology is the intestinal mucosa, where the epithelium and the lamina propria are main cellular compartments. While the epithelium contains predominantly epithelial cells, the lamina propria is enriched in immune cells and contains supporting stroma. Thus, the cells constituting these compartments can be classified as epithelial cells, immune cells and stromal cells. Gaining insight into how these cell types interact with each other is important to further our understanding of CD pathogenesis. Here, using isobaric labeling-based quantitative proteomics, we perform an exploratory study to analyze in-depth proteome changes in epithelial cells, immune cells and stromal cells purified by cell sorting from the intestinal mucosa of CD patients and controls. Our workflow preserving the link between the different cell types in individuals opens the possibility to explore cellular crosstalk and to further refine data on cell-cell interactions in the development of CD.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:58:07.240.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ivo Fabrik
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-09-08 07:10:31	ID requested
1	2023-01-04 04:06:49	announced
⏵ 2	2023-11-14 08:58:07	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: Immune Cells, TMT labeling, Epithelial cells, Cell sorting,Crohn’s disease

Mary Jo Wick
contact affiliation	Department of Microbiology and Immunology, Institute of Biomedicine, University of Gothenburg, Sweden
contact email	mary-jo.wick@immuno.gu.se
lab head
Ivo Fabrik
contact affiliation	Biomedical Research Center, University Hospital Hradec Kralove
contact email	ivo.fabrik@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/2023/01/PXD036591

PRIDE project URI

• PRIDE
  1. PXD036591
     1. Label: PRIDE project
     2. Name: Isobaric labeling-based quantitative proteomics of cells purified from the intestine of Crohn’s disease patients reveals immune cell-epithelial cell crosstalk of potential importance in disease pathogenesis