Proteomics dataset: The colon mucosa from inflammatory bowel disease patients, gastrointestinal asymptomic rheumatoid arthritis patients, and controls

Tue Bjerg Bennike; Thomas Gelsing Carlsen; Torkell Ellingsen; Ole Kristian Bonderup; Henning Glerup; Martin Bøgsted; Gunna Christiansen; Svend Birkelund; Vibeke Andersen; Allan Stensballe

doi:10.1016/j.dib.2017.09.059

Proteomics dataset: The colon mucosa from inflammatory bowel disease patients, gastrointestinal asymptomic rheumatoid arthritis patients, and controls

Data Brief. 2017 Oct 6:15:511-516. doi: 10.1016/j.dib.2017.09.059. eCollection 2017 Dec.

Authors

Affiliations

¹ Department of Health Science and Technology, Aalborg University, Aalborg, Denmark.
² AH Diagnostics, Aarhus, Denmark.
³ Department of Rheumatology, Odense University Hospital, Odense, Denmark.
⁴ Diagnostic Center, Section of Gastroenterology, Regional Hospital Silkeborg, Silkeborg, Denmark.
⁵ University Research Clinic for Innovative Patient Pathways, Aarhus University, Aarhus, Denmark.
⁶ Department of Clinical Medicine, Aalborg University, Aalborg, Denmark.
⁷ Department of Haematology, Aalborg University Hospital, Aalborg, Denmark.
⁸ Department of Biomedicine, Aarhus University, Aarhus, Denmark.
⁹ Institute of Regional Health Research-Center Soenderjylland, University of Southern Denmark, Odense, Denmark.
¹⁰ Department of Internal Medicine, Regional Hospital Viborg, Viborg, Denmark.

Abstract

The datasets presented in this article are related to the research articles entitled "Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies" (Bennike et al., 2015 [1]), and "Proteome Analysis of Rheumatoid Arthritis Gut Mucosa" (Bennike et al., 2017 [2]). The colon mucosa represents the main interacting surface of the gut microbiota and the immune system. Studies have found an altered composition of the gut microbiota in rheumatoid arthritis patients (Zhang et al., 2015; Vaahtovuo et al., 2008; Hazenberg et al., 1992) [5], [6], [7] and inflammatory bowel disease patients (Morgan et al., 2012; Abraham and Medzhitov, 2011; Bennike, 2014) [8], [9], [10]. Therefore, we characterized the proteome of colon mucosa biopsies from 10 inflammatory bowel disease ulcerative colitis (UC) patients, 11 gastrointestinal healthy rheumatoid arthritis (RA) patients, and 10 controls. We conducted the sample preparation and liquid chromatography mass spectrometry (LC-MS/MS) analysis of all samples in one batch, enabling label-free comparison between all biopsies. The datasets are made publicly available to enable critical or extended analyses. The proteomics data and search results, have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the dataset identifiers PXD001608 for ulcerative colitis and control samples, and PXD003082 for rheumatoid arthritis samples.

Keywords: Colon mucosa; Colonoscopy; Dataset; Inflammatory bowel diseases; Neutrophil extracellular traps; Proteomics; Rheumatoid arthritis; Sigmoidoscopy; Ulcerative colitis.