ArticleBMC bioinformatics2019
anamiR: integrated analysis of MicroRNA and gene expression profiling.
Article in BMC bioinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- MiRQuery: a user-friendly web app for the interactive analysis and visualization of microRNA sequencing data.BMC bioinformatics · 2026Article
- MIRit: an integrative R framework for the identification of impaired miRNA-mRNA regulatory networks in complex diseases.Bioinformatics advances · 2026Article
- An efficient framework to decipher microRNA regulatory programs applied to T cells.Genes and immunity · 2025Article
- Transcriptome-Wide Analysis of microRNA-mRNA Correlations in Tissue Identifies microRNA Targeting Determinants.Non-coding RNA · 2023Article
- Article
- Clinicopathologic and molecular analysis of aCold Spring Harbor molecular case studies · 2022Article
- miRModuleNet: Detecting miRNA-mRNA Regulatory Modules.Frontiers in genetics · 2022Article
- Integrative approaches for analysis of mRNA and microRNA high-throughput data.Computational and structural biotechnology journal · 2021Review
- STATegra: Multi-Omics Data Integration - A Conceptual Scheme With a Bioinformatics Pipeline.Frontiers in genetics · 2021Article
- Article
- Expressions of miR-155 and miR-181 and predictions of their structures and targets in pigs (Veterinary world · 2020Article
- Role of microRNA 690 in Mediating Angiotensin II Effects on Inflammation and Endoplasmic Reticulum Stress.Cells · 2020Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
backgroundWith advancements in high-throughput technologies, the cost of obtaining expression profiles of both mRNA and microRNA in the same individual has substantially decreased. Integrated analysis of these profiles can help to elucidate the functional effects of RNA expression in complex diseases, such as cancer. However, fundamental discrepancies are observed in the results from microRNA-mRNA target gene prediction algorithms, and few packages can be used to analyze microRNA and mRNA expression levels simultaneously.
resultsTo address these issues, an R package, anamiR, was developed. A total of 10 experimental/prediction databases were integrated. Two analytical functions are provided in anamiR, including the single marker test and functional gene set enrichment analysis, and several parameters can be changed by users. Here we demonstrate the potential application of the anamiR package to 2 publicly available microarray datasets.
conclusionThe anamiR package is effective for an integrated analysis of both RNA and microRNA profiles. By characterizing biological functions and signaling pathways, this package helps identify dysregulated genes/miRNAs from biological and medical experiments. The source code and manual of the anamiR package are freely available at https://bioconductor.org/packages/release/bioc/html/anamiR.html .
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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.