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Genome-wide Screen for miRNA Targets Using the MISSION Target ID Library
Published on: April 6, 2012
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IIKmTA: Inter and Intra Kingdom miRNA-Target Analyzer
Chittabrata Mal1, Md Aftabuddin2, Sudip Kundu3
1Amity Institute of Biotechnology, Amity University Kolkata, Major Arterial Road(North-South), AA II, Newtown, Rajarhat, West Bengal, 700135, India. cmal@kol.amity.edu.
Interdisciplinary Sciences, Computational Life Sciences
|March 18, 2018
Summary
Plant and animal microRNAs (miRNAs) can cross species to regulate gene expression. A new web tool, IIKmTA, analyzes these inter-kingdom miRNA-target interactions, aiding research into their biological and therapeutic potential.
Area of Science:
- * Molecular Biology
- * Bioinformatics
- * Genomics
Background:
- * MicroRNAs (miRNAs) are key regulators of gene expression at intra- and extracellular levels.
- * Plant/food-derived miRNAs are found in human serum and can regulate mammalian gene expression, suggesting cross-kingdom communication.
- * The mechanisms of miRNA transfer between species (inter-kingdom) and within species (intra-kingdom) are not fully understood, and tools for analyzing these interactions are lacking.
Purpose of the Study:
- * To develop a computational tool for analyzing miRNA-target interactions across different species and kingdoms.
- * To provide a platform for investigating the regulatory roles of plant and animal miRNAs in both intra- and inter-kingdom contexts.
Main Methods:
- * Development of a web-tool named "IIKmTA: Inter and Intra Kingdom miRNA-Target Analyzer".
- * Utilization of a curated database for analyzing miRNA targeting potential.
- * IIKmTA supports analysis of plant miRNAs on animal UTRs (Untranslated Regions) and vice versa (inter-kingdom), as well as plant-plant and animal-animal interactions (intra-kingdom).
- * The tool allows analysis of miRNA-to-target, target-to-miRNA, and set-to-set interactions for various species.
- * Calculation of miRNA GC% and AU% content.
Main Results:
- * IIKmTA can identify miRNA binding sites in UTRs for a wide range of animal and plant species.
- * The tool facilitates the analysis of both inter-kingdom (plant-animal) and intra-kingdom (plant-plant, animal-animal) miRNA-target relationships.
- * Users can analyze individual miRNAs, targets, or sets of both.
Conclusions:
- * The study introduces IIKmTA, a novel web-tool for analyzing cross-kingdom miRNA-target interactions.
- * Findings highlight the potential therapeutic applications of plant-derived miRNAs found in food, suggesting future disease treatments.
- * IIKmTA provides a valuable resource for researchers to explore miRNA-mediated gene regulation across kingdoms.
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