ArticleInternational journal of molecular sciences2020
PremPRI: Predicting the Effects of Missense Mutations on Protein-RNA Interactions.
Article in International journal of molecular sciences, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Beyond Metabolism: Pyruvate Carboxylase Acts as a Sequence-Selective Small RNA Sensor Orchestrating Antiviral Responses.bioRxiv : the preprint server for biology · 2026Article
- Systematic evaluation of computational tools to predict the effects of mutations on protein-ligand binding affinity in the absence of experimental structures.Briefings in bioinformatics · 2026Article
- Deciphering Mutational Impacts on c-Src-HK2 Interaction in Colorectal Cancer Progression, and Identification of Potential Phytocompounds Inhibitors: A Molecular Simulation and Free Energy Calculation Approach.Current medicinal chemistry · 2026Article
- Topological machine learning for protein-nucleic acid binding affinity changes upon mutation.Machine learning: science and technology · 2025Article
- Decoding the effects of mutation on protein interactions using machine learning.Biophysics reviews · 2025Review
- Bioinformatics Approaches for Understanding the Binding Affinity of Protein-Nucleic Acid Complexes.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Systematic investigation of machine learning on limited data: A study on predicting protein-protein binding strength.Computational and structural biotechnology journal · 2024Article
- PRITrans: A Transformer-Based Approach for the Prediction of the Effects of Missense Mutation on Protein-RNA Interactions.International journal of molecular sciences · 2024Article
- PNBACE: an ensemble algorithm to predict the effects of mutations on protein-nucleic acid binding affinity.BMC biology · 2024Article
- Mutational analysis of SARS-CoV-2 ORF6-KPNA2 binding interface and identification of potent small molecule inhibitors to recuse the host immune system.Frontiers in immunology · 2023Article
- Determinants of DNMT2/TRDMT1 preference for substrates tRNA and DNA during the evolution.RNA biology · 2023Article
- Assessing the in vitro Binding Affinity of Protein-RNA Interactions Using an RNA Pull-down Technique.Bio-protocol · 2022Article
- Computational tools to study RNA-protein complexes.Frontiers in molecular biosciences · 2022Review
- PremPLI: a machine learning model for predicting the effects of missense mutations on protein-ligand interactions.Communications biology · 2021Article
- Systematic comparison and prediction of the effects of missense mutations on protein-DNA and protein-RNA interactions.PLoS computational biology · 2021Article
- PremPS: Predicting the impact of missense mutations on protein stability.PLoS computational biology · 2020Article
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7 authors.
Funding
Abstract
Protein-RNA interactions are crucial for many cellular processes, such as protein synthesis and regulation of gene expression. Missense mutations that alter protein-RNA interaction may contribute to the pathogenesis of many diseases. Here, we introduce a new computational method PremPRI, which predicts the effects of single mutations occurring in RNA binding proteins on the protein-RNA interactions by calculating the binding affinity changes quantitatively. The multiple linear regression scoring function of PremPRI is composed of three sequence- and eight structure-based features, and is parameterized on 248 mutations from 50 protein-RNA complexes. Our model shows a good agreement between calculated and experimental values of binding affinity changes with a Pearson correlation coefficient of 0.72 and the corresponding root-mean-square error of 0.76 kcal·mol
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