ArticleBMC bioinformatics2026
MiRQuery: a user-friendly web app for the interactive analysis and visualization of microRNA sequencing data.
Article in BMC bioinformatics, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
0 citing papers in PubMed.
No citing paper in PubMed yet.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMicroRNAs (miRNAs) are a class of small noncoding RNAs that inhibit the translation of target messenger RNAs (mRNAs). Given that a single miRNA can regulate the translation of many mRNAs, miRNAs have emerged as critical regulators of physiological processes. MiRNAs have been linked to the development and progression of cancers, neurodegenerative and other diseases, most recently using high-throughput miRNA "miRNome" sequencing. As miRNome sequencing represents a newer 'omics application, limited guidance is available for how to analyze this data. Existing interfaces that enable non-computational users to interpret and perform comprehensive secondary analysis on their own miRNome data are limited in functionality and/or interactivity. Therefore, we developed MiRQuery to address this need.
resultsMiRQuery is an RShiny application which features common visualization methods for high-throughput sequencing data, such as multidimensional scaling, stacked column charts, heatmaps, and boxplots to compare expression across groups for a user-specified miRNA of interest. MiRQuery further provides support for differential miRNA and gene expression analysis. Unique to miRNome sequencing data analysis, users may retrieve predicted gene targets of differentially expressed miRNA and follow up with pathway overrepresentation analysis of the gene targets. Finally, if users upload paired bulk mRNA sequencing data, they may identify differentially expressed genes and negatively correlated miRNA-gene pairs.
conclusionsBy providing access to sophisticated bioinformatics tools through a user-friendly interface, MiRQuery empowers both scientists new to bioinformatics and bioinformaticians new to the field to extract insights rapidly and reproducibly from their sequencing data. MiRQuery can be accessed through PositConnect at https://julianneyang-mirquery.share.connect.posit.cloud/ , and alternatively is available by user local installation via instructions on the Github project homepage.
Indexed as
Identifiers
What OpenQuestion holds
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.