ArticleScientific reports2015
mirPRo-a novel standalone program for differential expression and variation analysis of miRNAs.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
31 citing papers in PubMed.
- A Narrative Review on Integrative Bioinformatics Approaches for microRNA Research in Familial Mediterranean Fever: Current Insights and Future Directions.Health science reports · 2026Article
- Differentially expressed miRNAs in the temporal cortex of Alzheimer's disease patients and their association to tau pathology.Communications biology · 2026Article
- Placental Extracellular Vesicles Exhibit Reduced Neurogenic Potential Linked to Changes in Their miRNA Landscape Upon HCMV Infection.Journal of extracellular biology · 2026Article
- Charting the equine miRNA landscape: An integrated pipeline and browser for annotating, quantifying, and visualizing expression.PLoS genetics · 2025Article
- Article
- MicroRNA Significance in Cancer: An Updated Review on Diagnostic, Prognostic, and Therapeutic Perspectives.EJIFCC · 2024Review
- From follicle to blastocyst: microRNA-34c from follicular fluid-derived extracellular vesicles modulates blastocyst quality.Journal of animal science and biotechnology · 2024Article
- Expression profile and gap-junctional transfer of microRNAs in the bovine cumulus-oocyte complex.Frontiers in cell and developmental biology · 2024Article
- Hatching is modulated by microRNA-378a-3p derived from extracellular vesicles secreted by blastocysts.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Identification and profiling of stable microRNAs in hemolymph of young and oldCurrent research in insect science · 2022Article
- Introduction to Bioinformatics Resources for Post-transcriptional Regulation of Gene Expression.Methods in molecular biology (Clifton, N.J.) · 2022Article
- A Unified Computational Framework for a Robust, Reliable, and Reproducible Identification of Novel miRNAs From the RNA Sequencing Data.Frontiers in bioinformatics · 2022Article
- miRMaster 2.0: multi-species non-coding RNA sequencing analyses at scale.Nucleic acids research · 2021Article
- Identification of Novel miRNAs and Their Target Genes in the Response to Abscisic Acid inInternational journal of molecular sciences · 2021Article
- Pi-starvation induced transcriptional changes in barley revealed by a comprehensive RNA-Seq and degradome analyses.BMC genomics · 2021Article
- Article
- Small noncoding RNA discovery and profiling with sRNAtools based on high-throughput sequencing.Briefings in bioinformatics · 2021Article
- MicroRNAs Regulating Autophagy in Neurodegeneration.Advances in experimental medicine and biology · 2021Article
- Different Expressions of Pericardial Fluid MicroRNAs in Patients With Arrhythmogenic Right Ventricular Cardiomyopathy and Ischemic Heart Disease Undergoing Ventricular Tachycardia Ablation.Frontiers in cardiovascular medicine · 2021Article
- Distinct and Coordinated Regulation of Small Non-coding RNAs by E2f1 and p53 DuringFrontiers in cell and developmental biology · 2021Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
Being involved in many important biological processes, miRNAs can regulate gene expression by targeting mRNAs to facilitate their degradation or translational inhibition. Many miRNA sequencing studies reveal that miRNA variations such as isomiRs and "arm switching" are biologically relevant. However, existing standalone tools usually do not provide comprehensive, detailed information on miRNA variations. To deepen our understanding of miRNA variability, we developed a new standalone tool called "mirPRo" to quantify known miRNAs and predict novel miRNAs. Compared with the most widely used standalone program, miRDeep2, mirPRo offers several new functions including read cataloging based on genome annotation, optional seed region check, miRNA family expression quantification, isomiR identification and categorization, and "arm switching" detection. Our comparative data analyses using three datasets from mouse, human and chicken demonstrate that mirPRo is more accurate than miRDeep2 by avoiding over-counting of sequence reads and by implementing different approaches in adapter trimming, mapping and quantification. mirPRo is an open-source standalone program (https://sourceforge.net/projects/mirpro/).
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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.