ArticlePloS one2020
Prediction of miRNA targets by learning from interaction sequences.
Article in PloS one, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 23 citations in OpenAlex.
- DeepExoMir: A Reproducible RNA Language Model Framework for CLIP-Seq-Supported MicroRNA Target-Site Prioritization.International journal of molecular sciences · 2026Article
- rbpCNN: a biophysics-informed deep learning model for predicting piRNA and mRNA interactions.Scientific reports · 2026Article
- Expression of miR-185-5p, miR-146b-5p, miR-320b, and miR-21-5p in Eosinophil Subtypes in Allergic Asthma Patients.Journal of asthma and allergy · 2026Article
- miRBench: novel benchmark datasets for microRNA binding site prediction that mitigate against prevalent microRNA frequency class bias.Bioinformatics (Oxford, England) · 2025Article
- Machine Learning Approach and Bioinformatics Analysis Discovered Key Genomic Signatures for Hepatitis B Virus-Associated Hepatocyte Remodeling and Hepatocellular Carcinoma.Cancer informatics · 2025Review
- miCGR: interpretable deep neural network for predicting both site-level and gene-level functional targets of microRNA.Briefings in bioinformatics · 2024Article
- microT-CNN: an avant-garde deep convolutional neural network unravels functional miRNA targets beyond canonical sites.Briefings in bioinformatics · 2024Article
- Review
- Article
- mintRULS: Prediction of miRNA-mRNA Target Site Interactions Using Regularized Least Square Method.Genes · 2022Article
- Binding sites of miRNA on the overexpressed genes of oral cancer using 7mer-seed match.Molecular and cellular biochemistry · 2022Article
- A miRNA Target Prediction Model Based on Distributed Representation Learning and Deep Learning.Computational and mathematical methods in medicine · 2022Article
- Article
- Estimating the predictive power of silent mutations on cancer classification and prognosis.NPJ genomic medicine · 2021Article
- Evaluating the Effect of 3'-UTR Variants inCurrent issues in molecular biology · 2021Article
- Incorporating Machine Learning into Established Bioinformatics Frameworks.International journal of molecular sciences · 2021Review
- Emerging Role of microRNAs in Stroke Protection Elicited by Remote Postconditioning.Frontiers in neurology · 2021Review
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MicroRNAs (miRNAs) are involved in a diverse variety of biological processes through regulating the expression of target genes in the post-transcriptional level. So, it is of great importance to discover the targets of miRNAs in biological research. But, due to the short length of miRNAs and limited sequence complementarity to their gene targets in animals, it is challenging to develop algorithms to predict the targets of miRNA accurately. Here we developed a new miRNA target prediction algorithm using a multilayer convolutional neural network. Our model learned automatically the interaction patterns of the experiment-validated miRNA:target-site chimeras from the raw sequence, avoiding hand-craft selection of features by domain experts. The performance on test dataset is inspiring, indicating great generalization ability of our model. Moreover, considering the stability of miRNA:target-site duplexes, our method also showed good performance to predict the target transcripts of miRNAs.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.