ArticleBMC genomics2014
Improving miRNA-mRNA interaction predictions.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- MicroRNA bioinformatics in precision oncology: an integrated pipeline from NGS to AI-based target discovery.Journal of applied genetics · 2025Review
- Species-specific microRNA discovery and target prediction in the soybean cyst nematode.Scientific reports · 2023Article
- P-TarPmiR accurately predicts plant-specific miRNA targets.Scientific reports · 2023Article
- Article
- Bioinformatics analysis and experimental verification of Notch signalling pathway-related miRNA-mRNA subnetwork in extracellular vesicles during Echinococcus granulosus encystation.Parasites & vectors · 2022Article
- Immunotherapy in Older Adults With Cancer.Journal of clinical oncology : official journal of the American Society of Clinical Oncology · 2021Review
- Prediction methods for microRNA targets in bilaterian animals: Toward a better understanding by biologists.Computational and structural biotechnology journal · 2021Review
- DisCoVering potential candidates of RNAi-based therapy for COVID-19 using computational methods.PeerJ · 2021Article
- Review
- RPmirDIP: Reciprocal Perspective improves miRNA targeting prediction.Scientific reports · 2020Article
- miRNA target identification and prediction as a function of time in gene expression data.RNA biology · 2020Article
- Associating lncRNAs with small molecules via bilevel optimization reveals cancer-related lncRNAs.PLoS computational biology · 2019Article
- The long non-coding RNAeLife · 2019Article
- MiR-29b-1-5p is altered in BRCA1 mutant tumours and is a biomarker in basal-like breast cancer.Oncotarget · 2018Article
- miRNA profiling during antigen-dependent T cell activation: A role for miR-132-3p.Scientific reports · 2017Article
- MicroRNA expression and gene regulation drive breast cancer progression and metastasis in PyMT mice.Breast cancer research : BCR · 2016Article
- MicroRNA-206 is differentially expressed in Brca1-deficient mice and regulates epithelial and stromal cell compartments of the mouse mammary gland.Oncogenesis · 2016Article
- MicroRNAs Circulate in the Hemolymph of Drosophila and Accumulate Relative to Tissue microRNAs in an Age-Dependent Manner.Genomics insights · 2016Article
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMicroRNAs are short RNA molecules that post-transcriptionally regulate gene expression. Today, microRNA target prediction remains challenging since very few have been experimentally validated and sequence-based predictions have large numbers of false positives. Furthermore, due to the different measuring rules used in each database of predicted interactions, the selection of the most reliable ones requires extensive knowledge about each algorithm.
resultsHere we propose two methods to measure the confidence of predicted interactions based on experimentally validated information. The output of the methods is a combined database where new scores and statistical confidences are re-assigned to each predicted interaction. The new scores allow the robust combination of several databases without the effect of low-performing algorithms dragging down good-performing ones. The combined databases obtained using both algorithms described in this paper outperform each of the existing predictive algorithms that were considered for the combination.
conclusionsOur approaches are a useful way to integrate predicted interactions from different databases. They reduce the selection of interactions to a unique database based on an intuitive score and allow comparing databases between them.
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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.