PXD001608

PXD001608 is an original dataset announced via ProteomeXchange.

Title	Human colon biopsies (healthy and Ulcerative Colitis) LC-MS/MS
Description	The etiology of the inflammatory bowel diseases, including ulcerative colitis, remains incomplete, but recent findings points to the involvement of complex host-microbial interactions. We hypothesized that an analysis of the proteins on the host-microbial interacting surface, the intestinal mucosa, could reveal novel insights into the diseases. Mucosal colonic biopsies were extracted by standard colonscopy from sigmoideum from 10 ulcerative colitis patients from non-inflammed tissue and 10 controls. The biopsies were immediately following extraction snap-frozen for protein analysis and the protein content of the biopsies was characterized by high-throughput quantative gel-free proteomics.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:22:07.070.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tue Bjerg Bennike
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2014-12-15 02:18:30	ID requested
1	2015-05-26 10:47:00	announced
2	2017-10-24 00:13:33	announced	Updated project metadata.
3	2017-10-24 05:22:08	announced	Updated project metadata.
4	2017-10-24 06:00:49	announced	Updated project metadata.
⏵ 5	2024-10-22 04:22:16	announced	2024-10-22: Updated project metadata.

Bennike TB, Carlsen TG, Ellingsen T, Bonderup OK, Glerup H, B, ø, gsted M, Christiansen G, Birkelund S, Stensballe A, Andersen V, Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies. Inflamm Bowel Dis, 21(9):2052-67(2015) [pubmed]

Bennike TB, Ellingsen T, Glerup H, Bonderup OK, Carlsen TG, Meyer MK, B, ø, gsted M, Christiansen G, Birkelund S, Andersen V, Stensballe A, Proteome Analysis of Rheumatoid Arthritis Gut Mucosa. J Proteome Res, 16(1):346-354(2017) [pubmed]

ProteomeXchange project tag: benchmarking, machine learning

submitter keyword: Human, control, biopsies, LC-MS, Q Exactive, ulcerative, colon, healthy, colitis

Allan Stensballe
contact affiliation	Laboratory for Medical Mass pectrometry Department of Health Science and Tecnology Aalborg University Denmark
contact email	as@hst.aau.dk
lab head
Tue Bjerg Bennike
contact affiliation	Aalborg University
contact email	tbe@hst.aau.dk
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/2015/05/PXD001608

PRIDE project URI

• PRIDE
  1. PXD001608
     1. Label: PRIDE project
     2. Name: Human colon biopsies (healthy and Ulcerative Colitis) LC-MS/MS