Evidence map›Paper›PMID 41723392›Full record

ArticleBMC genomics2026

PRIME-BSPre: a genome-wide protein-RNA binding sites prediction method based on templates.

Xinhang Wei, Yingtian Duan, Danyang Li, Xudong Liu, Juan Xie, Shiyong Liu

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

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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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

6 authors.

Xinhang Wei *School of Physics, Huazhong University of Science and Technology, Wuhan, Hubei, 430074, China.
Yingtian Duan *School of Physics, Huazhong University of Science and Technology, Wuhan, Hubei, 430074, China.
Danyang LiSchool of Physics, Huazhong University of Science and Technology, Wuhan, Hubei, 430074, China.
Xudong LiuSchool of Physics, Huazhong University of Science and Technology, Wuhan, Hubei, 430074, China.
Juan XieSchool of Physics, Huazhong University of Science and Technology, Wuhan, Hubei, 430074, China.
Shiyong LiuSchool of Physics, Huazhong University of Science and Technology, Wuhan, Hubei, 430074, China. liushiyong@gmail.com.

Funding

National Natural Science Foundation of China 32271267
6 · The paper itself

Abstract

In this paper, we present PRIME-BSPre, a template-based genome-wide method for predicting protein-RNA binding sites that incorporates the RNA sequence and secondary structure as well as the tertiary structure of corresponding RBPs. We are pioneers in introducing low Shannon entropy algorithm in PRIME-BSPre to describe the binding preferences of RBPs on RNA motifs. The LS-PEAK derived from LS-Scores in PRIME-BSPre is utilized to optimize the alignments screening. PRIME-BSPre has been successfully benchmarked on the human genome, demonstrating its excellent prediction performance on independent RBP datasets and its robustness across different cell lines.

Indexed as

Computational BiologyGenomicsRNARNA-Binding ProteinsAlgorithmsBinding SitesGenome, HumanHumansNucleic Acid ConformationPrediction AlgorithmsProtein BindingRNARNA-Binding ProteinsBinding site predictionComputational genomicseCLIPProtein–RNA interactionRNA-binding proteins (RBPs)RNA secondary structureTemplate-based methodTranscriptome-wide analysis

Identifiers

PMID41723392
PMCPMC13032426

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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.