ArticleRSC advances2018
New 3D graphical representation for RNA structure analysis and its application in the pre-miRNA identification of plants.
Article in RSC advances, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
What it found
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Who cites it
5 citing papers in PubMed.
- Improved Visualization Method of DNA Sequences and its Application in Phylogenetic Analysis.Combinatorial chemistry & high throughput screening · 2026Article
- BreCML: identifying breast cancer cell state in scRNA-seq via machine learning.Frontiers in medicine · 2024Article
- NRTPredictor: identifying rice root cell state in single-cell RNA-seq via ensemble learning.Plant methods · 2023Article
- Improved Pre-miRNAs Identification Through Mutual Information of Pre-miRNA Sequences and Structures.Frontiers in genetics · 2019Article
- MicroRNA prediction based on 3D graphical representation of RNA secondary structures.Turkish journal of biology = Turk biyoloji dergisi · 2019Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MicroRNAs (miRNAs) are a family of short non-coding RNAs that play significant roles as post-transcriptional regulators. Consequently, various methods have been proposed to identify precursor miRNAs (pre-miRNAs), among which the comparative studies of miRNA structures are the most important. To measure and classify the structural similarity of miRNAs, we propose a new three-dimensional (3D) graphical representation of the secondary structure of miRNAs, in which an miRNA secondary structure is initially transformed into a characteristic sequence based on physicochemical properties and frequency of base. A numerical characterization of the 3D graph is used to represent the miRNA secondary structure. We then utilize a novel Euclidean distance method based on this expression to compute the distance of different miRNA sequences for the sequence similarity analysis. Finally, we use this sequence similarity analysis method to identify plant pre-miRNAs among three commonly used datasets. Results show that the method is reasonable and effective.
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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.