ArticleMolecular genetics and genomics : MGG2020
XG-PseU: an eXtreme Gradient Boosting based method for identifying pseudouridine sites.
Article in Molecular genetics and genomics : MGG, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 37 papers, 1 of them a synthesis that pooled it.
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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.
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Who cites it
37 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Emerging Role of Epitranscriptomics in Diabetes Mellitus and Its Complications.Frontiers in endocrinology · 2022Pooled it
- Fusion_f5C-Pred: a dual-branch feature fusion framework for 5-formylcytosine modification sites prediction.BMC genomics · 2025Article
- RSCNN-PseU: random searching-based convolutional neural network model for identifying RNA pseudouridine.Briefings in bioinformatics · 2025Article
- Investigating factors influencing quality of life in thyroid eye disease: insight from machine learning approaches.European thyroid journal · 2025Article
- Definer: A computational method for accurate identification of RNA pseudouridine sites based on deep learning.PloS one · 2025Article
- Domain-knowledge enabled ensemble learning of 5-formylcytosine (f5C) modification sites.Computational and structural biotechnology journal · 2024Article
- Bioinformatics for Inosine: Tools and Approaches to Trace This Elusive RNA Modification.Genes · 2024Review
- Article
- Fuzzy kernel evidence Random Forest for identifying pseudouridine sites.Briefings in bioinformatics · 2024Article
- LBCE-XGB: A XGBoost Model for Predicting Linear B-Cell Epitopes Based on BERT Embeddings.Interdisciplinary sciences, computational life sciences · 2023Article
- Machine learning predictive model for aspiration screening in hospitalized patients with acute stroke.Scientific reports · 2023Article
- PseU-ST: A new stacked ensemble-learning method for identifying RNA pseudouridine sites.Frontiers in genetics · 2023Article
- RCCC_Pred: A Novel Method for Sequence-Based Identification of Renal Clear Cell Carcinoma Genes through DNA Mutations and a Blend of Features.Diagnostics (Basel, Switzerland) · 2022Article
- Artificial intelligence and machine learning approaches using gene expression and variant data for personalized medicine.Briefings in bioinformatics · 2022Review
- Penguin: A tool for predicting pseudouridine sites in direct RNA nanopore sequencing data.Methods (San Diego, Calif.) · 2022Article
- Dynamic regulation and key roles of ribonucleic acid methylation.Frontiers in cellular neuroscience · 2022Review
- Article
- Interferon inducible pseudouridine modification in human mRNA by quantitative nanopore profiling.Genome biology · 2021Article
- Accurate identification of RNA D modification using multiple features.RNA biology · 2021Article
- Porpoise: a new approach for accurate prediction of RNA pseudouridine sites.Briefings in bioinformatics · 2021Article
Corrections and comments
- Erratum issued
Authors and funding
3 authors.
Funding
Abstract
As one of the most popular post-transcriptional modifications, pseudouridine (Ψ) participates in a series of biological processes. Therefore, the efficient detection of pseudouridine sites is very important in revealing its functions in biological processes. Although experimental techniques have been proposed for identifying Ψ sites at single-base resolution, they are still labor intensive and expensive. Recently, to fill the experimental method's gap, computational methods have been proposed for identifying Ψ sites. However, their performances are still unsatisfactory. In this paper, we proposed an eXtreme Gradient Boosting (xgboost)-based method, called XG-PseU, to identify Ψ sites based on the optimal features obtained using the forward feature selection together with increment feature selection method. Our results demonstrated that XG-PseU is superior or at least complementary to existing methods for identifying pseudouridine sites. Finally, a freely available online web server for XG-PseU was established at http://www.bioml.cn/. We wish that XG-PseU will become a useful tool for computationally identifying Ψ sites.
Indexed as
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31392406What OpenQuestion holds
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.