PXD003082

PXD003082 is an original dataset announced via ProteomeXchange.

Title	A proteome analysis by LC-MS/MS of human colon mucosal biopsies from gastrointestinal healthy rheumatoid arthritis patients
Description	The joint disease rheumatoid arthritis (RA) is characterized by persistent synovitis, leading to cartilage damage, bone erosion, and ultimately impaired joint function. The disease affects 0.5 to 1.0% of adults in developed countries, and is three times more frequent in women than in men. A number of autoantibodies can be detected in RA patient’s serum targeting the patient’s own proteins. Several of these proteins, including rheumatoid factor, can also be detected in patients suffering from other autoimmune diseases, including the inflammatory bowel diseases (IBD). IBD and RA share several genetic risk logi, an altered gut microbiota, and environmental risk factors. Articular involvement is the most common extra-intestinal manifestation in patients diagnosed with IBD, with a prevalence between 17 to 39%. Additionally, methotrexate (MTX) is the most frequently prescribed immunosuppressive drug for RA and the second most for the IBD, indicating close similarities between the two diseases. We, therefore, characterized the protein content (the proteome) of the colon mucosa of gastrointestinal healthy RA patients, to investigate if we could detect IBD-related changes. The LC-MS/MS analysis was conducted as part of a previous study (ProteomeXChange submission PXD001608), enabling a comparison between the two datasets, containing the colon mucosal proteome of 11 RA patients, 10 IBD (ulcerative colitis) patients, and 10 controls. This data submission covers the triplicate proteome analysis of the colon mucosa of 11 gastrointestinal healthy RA patients.
HostingRepository	PRIDE
AnnounceDate	2017-10-24
AnnouncementXML	Submission_2017-10-24_01:44:48.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	2015-10-20 02:24:02	ID requested
1	2016-09-26 12:35:00	announced
2	2017-06-20 05:43:37	announced	Updated project metadata.
⏵ 3	2017-10-24 01:44:49	announced	Updated project metadata.

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]

curator keyword: Biomedical

submitter keyword: Human, colon, mucosa, rheumatoid arthritis, gastrointestinal healthy, LC-MSMS, proteomics

Allan Stensballe
contact affiliation	The Laboratory for Medical Mass Spectrometry Department of Health Science and Technology Aalborg University Denmark
contact email	as@hst.aau.dk
lab head
Tue Bjerg Bennike
contact affiliation	Harvard Medical School
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/2016/09/PXD003082

PRIDE project URI

• PRIDE
  1. PXD003082
     1. Label: PRIDE project
     2. Name: A proteome analysis by LC-MS/MS of human colon mucosal biopsies from gastrointestinal healthy rheumatoid arthritis patients