Evidence map›Paper›PMID 40380054›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2025

The Usage of PmiREN (Plant miRNA ENcyclopedia).

Zhonglong Guo, Zheng Kuang, Xiaozeng Yang

Abstract read
PubMed Publisher
In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 2025. 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
–field-weighted citation impact
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.

  1. Article
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

3 authors.

Zhonglong GuoCo-Innovation Center for Sustainable Forestry in Southern China, School of Life Sciences, Nanjing Forestry University, Nanjing, China. guozhl@pku.edu.cn.
Zheng KuangInstitute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China.
Xiaozeng YangState Key Laboratory of Plant Diversity and Specialty Crops, Institute of Botany, the Chinese Academy of Sciences, Beijing, China. yangxz@ibcas.ac.cn.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

MicroRNAs (miRNAs) are endogenous non-coding small RNAs that function as diverse gene regulators at the post-transcriptional level. Over the past two decades, intense research efforts on miRNA identification, function and evolution have raised the demand for miRNA databases. We constructed a knowledge-based database called Plant miRNA Encyclopedia (PmiREN, https://pmiren.com/ ) in 2019 and continued to update it. PmiREN is based on the uniform processing of sequenced small RNA libraries using miRDeep-P2. It currently contains 38,186 high confidence miRNA loci from 179 plant species and incorporates multiple tools for data mining and data-driven research. Here, we summarize the usage of PmiREN, aiming to serve the entire research community of plant miRNAs.

Indexed as

Computational BiologyDatabases, GeneticDatabases, Nucleic AcidMicroRNAsPlantsRNA, PlantData MiningGene Expression Regulation, PlantSoftwareMicroRNAsRNA, PlantPlant miRNA, PmiREN, Database, Analysis tool, sRNA-seq

Identifiers

PMID40380054

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.