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Addendum published on 9 October 2017, see Int. J. Mol. Sci. 2017, 18(10), 2113.

Open AccessArticle
Int. J. Mol. Sci. 2017, 18(7), 1580; doi:10.3390/ijms18071580

Functional Implications of MicroRNAs in Crohn’s Disease Revealed by Integrating MicroRNA and Messenger RNA Expression Profiling

1
IRCCS ‘Casa Sollievo della Sofferenza’, Division of Gastroenterology, 71013 San Giovanni Rotondo, Italy
2
Institute of Intelligent Systems for Automation, National Research Council, CNR-ISSIA, 70126 Bari, Italy
3
Center for Complex Systems in Molecular Biology and Medicine, University of Turin, 10124 Turin, Italy
4
IRCCS ‘Casa Sollievo della Sofferenza’, Division of Medical Genetics, 71013 San Giovanni Rotondo, Italy
These authors contributed equally to this work.
*
Author to whom correspondence should be addressed.
Received: 17 June 2017 / Revised: 12 July 2017 / Accepted: 16 July 2017 / Published: 20 July 2017
(This article belongs to the Section Biochemistry, Molecular and Cellular Biology)
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Abstract

Crohn’s disease (CD) is a debilitating inflammatory bowel disease (IBD) that emerges due to the influence of genetic and environmental factors. microRNAs (miRNAs) have been identified in the tissue and sera of IBD patients and may play an important role in the induction of IBD. Our study aimed to identify differentially expressed miRNAs and miRNAs with the ability to alter transcriptome activity by comparing inflamed tissue samples with their non-inflamed counterparts. We studied changes in miRNA–mRNA interactions associated with CD by examining their differential co-expression relative to normal mucosa from the same patients. Correlation changes between the two conditions were incorporated into scores of predefined gene sets to identify biological processes with altered miRNA-mediated control. Our study identified 28 miRNAs differentially expressed (p-values < 0.01), of which 14 are up-regulated. Notably, our differential co-expression analysis highlights microRNAs (i.e., miR-4284, miR-3194 and miR-21) that have known functional interactions with key mechanisms implicated in IBD. Most of these miRNAs cannot be detected by differential expression analysis that do not take into account miRNA–mRNA interactions. The identification of differential miRNA–mRNA co-expression patterns will facilitate the investigation of the miRNA-mediated molecular mechanisms underlying CD pathogenesis and could suggest novel drug targets for validation. View Full-Text
Keywords: Crohn’s disease; microRNA; mRNA; differential expression analysis; microRNA–mRNA co-expression Crohn’s disease; microRNA; mRNA; differential expression analysis; microRNA–mRNA co-expression
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Palmieri, O.; Creanza, T.M.; Bossa, F.; Latiano, T.; Corritore, G.; Palumbo, O.; Martino, G.; Biscaglia, G.; Scimeca, D.; Carella, M.; Ancona, N.; Andriulli, A.; Latiano, A. Functional Implications of MicroRNAs in Crohn’s Disease Revealed by Integrating MicroRNA and Messenger RNA Expression Profiling. Int. J. Mol. Sci. 2017, 18, 1580.

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