Degradation of the extracellular matrix is part of the pathology of ulcerative colitis

Stefan Kirov, Ariella Sasson, Clarence Zhang, Scott Chasalow, Ashok Dongre, Hanno Steen, Allan Stensballe, Vibeke Andersen, Svend Birkelund, Tue Bjerg Bennike

Research output: Working paperResearch

Abstract

The scientific value of re-analyzing existing datasets is often proportional to the complexity of the data. Proteomics data are inherently complex and can be analyzed at many levels, including proteins, peptides, and post-translational modifications to verify and/or develop new hypotheses. In this paper, we present our re-analysis of a previously published study comparing colon biopsy samples from ulcerative colitis (UC) patients to non-affected controls. In addition to confirming and reinforcing the original finding of upregulation of neutrophil extracellular traps (NETs), we report novel findings, including that Extracellular Matrix (ECM) degradation and neutrophil maturation are involved in the pathology of UC. The pharmaceutically most relevant differential protein expressions were confirmed using immunohistochemistry as an orthogonal method. As part of this study, we also compared proteomics data to previously published mRNA expression data. These comparisons indicated compensatory regulation at transcription levels of the ECM proteins we identified and open possible new venues for drug discovery.
Original languageEnglish
PublisherbioRxiv
DOIs
Publication statusPublished - 10 Sep 2018

Bibliographical note

Stefan Kirov, Ariella Sasson, Clarence Zhang, Scott Chasalow, Ashok Dongre, Hanno Steen, Allan Stensballe, Vibeke Andersen, Svend Birkelund, Tue Bjerg Bennike
doi: https://doi.org/10.1101/412684

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