ArticleBMC bioinformatics2013
mirCoX: a database of miRNA-mRNA expression correlations derived from RNA-seq meta-analysis.
Article in BMC bioinformatics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 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
11 citing papers in PubMed.
- MicroRNAs in ascending thoracic aortic aneurysms.Bioscience reports · 2020Observational
- RPmirDIP: Reciprocal Perspective improves miRNA targeting prediction.Scientific reports · 2020Article
- Single-cell microRNA-mRNA co-sequencing reveals non-genetic heterogeneity and mechanisms of microRNA regulation.Nature communications · 2019Article
- Discovering functional impacts of miRNAs in cancers using a causal deep learning model.BMC medical genomics · 2018Article
- MicroRNAs Targeting Caspase-3 and -7 in PANC-1 Cells.International journal of molecular sciences · 2018Article
- Comparative Analysis of Human Genes Frequently and Occasionally Regulated by mGenomics, proteomics & bioinformatics · 2018Article
- mirDIP 4.1-integrative database of human microRNA target predictions.Nucleic acids research · 2018Article
- Principles of miRNA-mRNA interactions: beyond sequence complementarity.Cellular and molecular life sciences : CMLS · 2015Review
- Current transcriptomics in pig immunity research.Mammalian genome : official journal of the International Mammalian Genome Society · 2015Review
- The Triple-Negative Breast Cancer Database: an omics platform for reference, integration and analysis of triple-negative breast cancer data.Breast cancer research : BCR · 2014Article
- Proceedings of the 2013 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference.BMC bioinformatics · 2013Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
backgroundExperimentally validated co-expression correlations between miRNAs and genes are a valuable resource to corroborate observations about miRNA/mRNA changes after experimental perturbations, as well as compare miRNA target predictions with empirical observations. For example, when a given miRNA is transcribed, true targets of that miRNA should tend to have lower expression levels relative to when the miRNA is not expressed.
methodsWe processed publicly available human RNA-seq experiments obtained from NCBI's Sequence Read Archive (SRA) to identify miRNA-mRNA co-expression trends and summarized them in terms of their Pearson's Correlation Coefficient (PCC) and significance.
resultsWe found that sequence-derived parameters from TargetScan and miRanda were predictive of co-expression, and that TargetScan- and miRanda-derived gene-miRNA pairs tend to have anti-correlated expression patterns in RNA-seq data compared to controls. We provide this data for download and as a web application available at http://wrenlab.org/mirCoX/.
conclusionThis database of empirically established miRNA-mRNA transcriptional correlations will help to corroborate experimental observations and could be used to help refine and validate miRNA target predictions.
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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.