Review of databases for experimentally validated human microRNA-mRNA interactions.

Autor:	Kariuki D; Department of Physiological Nursing, University of California, San Francisco, CA 94143, USA., Asam K; Bluestone Center for Clinical Research, New York University, New York, CA 10010, USA., Aouizerat BE; Bluestone Center for Clinical Research, New York University, New York, CA 10010, USA.; Department of Oral and Maxillofacial Surgery, New York University, New York, CA 10010, USA., Lewis KA; Department of Physiological Nursing, University of California, San Francisco, CA 94143, USA., Florez JC; Department of Medicine, Center for Genomic Medicine and Diabetes Unit, Massachusetts General Hospital, Boston, MA 02114, USA.; Programs in Metabolism and Medical & Population Genetics, Broad Institute, Cambridge, MA 02142, USA.; Department of Medicine, Harvard Medical School, Boston, MA 02115, USA., Flowers E; Department of Physiological Nursing, University of California, San Francisco, CA 94143, USA.; Institute for Human Genetics, University of California, San Francisco, CA 94143, USA.
Jazyk:	angličtina
Zdroj:	Database : the journal of biological databases and curation [Database (Oxford)] 2023 Apr 25; Vol. 2023.
DOI:	10.1093/database/baad014
Abstrakt:	MicroRNAs (miRs) may contribute to disease etiology by influencing gene expression. Numerous databases are available for miR target prediction and validation, but their functionality is varied, and outputs are not standardized. The purpose of this review is to identify and describe databases for cataloging validated miR targets. Using Tools4miRs and PubMed, we identified databases with experimentally validated targets, human data, and a focus on miR-messenger RNA (mRNA) interactions. Data were extracted about the number of times each database was cited, the number of miRs, the target genes, the interactions per database, experimental methodology and key features of each database. The search yielded 10 databases, which in order of most cited to least were: miRTarBase, starBase/The Encyclopedia of RNA Interactomes, DIANA-TarBase, miRWalk, miRecords, miRGator, miRSystem, miRGate, miRSel and targetHub. Findings from this review suggest that the information presented within miR target validation databases can be enhanced by adding features such as flexibility in performing queries in multiple ways, downloadable data, ongoing updates and integrating tools for further miR-mRNA target interaction analysis. This review is designed to aid researchers, especially those new to miR bioinformatics tools, in database selection and to offer considerations for future development and upkeep of validation tools. Database URL http://mirtarbase.cuhk.edu.cn/. (© The Author(s) 2023. Published by Oxford University Press.)
Databáze:	MEDLINE
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