ArticleiScience2019
Accurate and Efficient Mapping of the Cross-Linked microRNA-mRNA Duplex Reads.
Article in iScience, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
What it found
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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.
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
8 citing papers in PubMed.
- From spacecraft ranging to massive DNA data storage: Composite ranging codes as indices and error correction references.Science advances · 2026Article
- MUTACLASH: identifying functional small RNA target sites using crosslinking-induced mutations.RNA (New York, N.Y.) · 2026Article
- DuplexDiscoverer: a computational method for the analysis of experimental duplex RNA-RNA interaction data.Nucleic acids research · 2025Article
- Analysis of crosslinking sites suggestsbioRxiv : the preprint server for biology · 2025Article
- Chemical RNA Cross-Linking: Mechanisms, Computational Analysis, and Biological Applications.JACS Au · 2023Review
- CLASH Analyst: A Web Server to Identify In Vivo RNA-RNA Interactions from CLASH Data.Non-coding RNA · 2022Article
- ChiRA: an integrated framework for chimeric read analysis from RNA-RNA interactome and RNA structurome data.GigaScience · 2021Article
- 3D cell culture stimulates the secretion of in vivo like extracellular vesicles.Scientific reports · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
MicroRNA (miRNA) trans-regulates the stability of many mRNAs and controls their expression levels. Reconstruction of the miRNA-mRNA interactome is key to the understanding of the miRNA regulatory network and related biological processes. However, existing miRNA target prediction methods are limited to canonical miRNA-mRNA interactions and have high false prediction rates. Other experimental methods are low throughput and cannot be used to probe genome-wide interactions. To address this challenge, the Cross-linking Ligation and Sequencing of Hybrids (CLASH) technology was developed for high-throughput probing of transcriptome-wide microRNA-mRNA interactions in vivo. The mapping of duplex reads, chimeras of two ultra-short RNA strands, poses computational challenges to current mapping and alignment methods. To address this issue, we developed CLAN (CrossLinked reads ANalysis toolkit). CLAN generated a comparable mapping of singular reads to other tools, and significantly outperformed in mapping simulated and real CLASH duplex reads, offering a potential application to other next-generation sequencing-based duplex-read-generating technologies.
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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.