MiRTissue : Extending MiRTissue Web Service with the Analysis of CeRNA-ceRNA Interactions

Overview

Journal BMC Bioinformatics

Publisher Biomed Central

Specialty Biology

Date 2020 Sep 17

PMID 32938402

Citations 10

Authors

Antonino Fiannaca

Laura La Paglia

Massimo La Rosa

Riccardo Rizzo

Alfonso Urso

Affiliations

Soon will be listed here.

Abstract

Background: Non-coding RNAs include different classes of molecules with regulatory functions. The most studied are microRNAs (miRNAs) that act directly inhibiting mRNA expression or protein translation through the interaction with a miRNAs-response element. Other RNA molecules participate in the complex network of gene regulation. They behave as competitive endogenous RNA (ceRNA), acting as natural miRNA sponges to inhibit miRNA functions and modulate the expression of RNA messenger (mRNA). It became evident that understanding the ceRNA-miRNA-mRNA crosstalk would increase the functional information across the transcriptome, contributing to identify new potential biomarkers for translational medicine.

Results: We present miRTissue , an improvement of our original miRTissue web service. By introducing a novel computational pipeline, miRTissue provides an easy way to search for ceRNA interactions in several cancer tissue types. Moreover it extends the functionalities of previous miRTissue release about miRNA-target interaction in order to provide a complete insight about miRNA mediated regulation processes. miRTissue is freely available at http://tblab.pa.icar.cnr.it/mirtissue.html .

Conclusions: The study of ceRNA networks and its dynamics in cancer tissue could be applied in many fields of translational biology, as the investigation of new cancer biomarker, both diagnostic and prognostic, and also in the investigation of new therapeutic strategies of intervention. In this scenario, miRTissue can offer a powerful instrument for the analysis and characterization of ceRNA-ceRNA interactions in different tissue types, representing a fundamental step in order to understand more complex regulation mechanisms.

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