Evidence map›Paper›PMID 31601146›Full record

ArticleRNA biology2020

A robust model for quantitative prediction of the silencing efficacy of wild-type and A-to-I edited miRNAs.

Shen Tian, Goro Terai, Yoshiaki Kobayashi, Yasuaki Kimura, Hiroshi Abe, Kiyoshi Asai, Kumiko Ui-Tei

Open access · bronzeAbstract read
In one paragraph

Article in RNA biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.1field-weighted citation impact, top 57% of its field
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed, 3 citations in OpenAlex.

  1. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 3 institutions in 1 country.

Shen TianDepartment of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan.ORCID 0000-0002-2247-849X
Goro TeraiDepartment of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba , Japan.
Yoshiaki KobayashiDepartment of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan.
Yasuaki KimuraDepartment of Chemistry, Graduate School of Science, Nagoya University, Nagoya, Japan.
Hiroshi AbeDepartment of Chemistry, Graduate School of Science, Nagoya University, Nagoya, Japan.
Kiyoshi AsaiDepartment of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba , Japan.
Kumiko Ui-TeiDepartment of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan.ORCID 0000-0001-8695-9025
Chiba University · JPNagoya University · JPThe University of Tokyo · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

MicroRNAs (miRNAs) are small non-coding RNAs that play essential roles in the regulation of gene function by a mechanism known as RNA silencing. In a previous study, we revealed that miRNA-mediated silencing efficacy is correlated with the combinatorial thermodynamic properties of the miRNA seed-target mRNA duplex and the 5´-terminus of the miRNA duplex, which can be predicted using 'miScore'. In this study, a robust refined-miScore was developed by integrating the thermodynamic properties of various miRNA secondary structures and the latest thermodynamic parameters of wobble base-pairing, including newly established parameters for I:C base pairing. Through repeated random sampling and machine learning, refined-miScore models calculated with either melting temperature (T

Indexed as

AdenosineAmino Acid SubstitutionInosineModels, BiologicalRNA EditingRNA InterferenceAlgorithmsMachine LearningMicroRNAsNucleic Acid ConformationRNA, MessengerRNA StabilityThermodynamicsAdenosineInosineMicroRNAsRNA, Messengermachine learningmiRNAmiScoreRNA editingsilencing efficacythermodynamics

Identifiers

PMID31601146
PMCPMC6973332
OpenAlexW2979723328

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

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.