ArticleFrontiers in genetics2019
Predicting lncRNA-Protein Interactions With miRNAs as Mediators in a Heterogeneous Network Model.
Article in Frontiers in genetics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Inter-view contrastive learning and miRNA fusion for lncRNA-protein interaction prediction in heterogeneous graphs.Briefings in bioinformatics · 2025Article
- BioPrediction-RPI: Democratizing the prediction of interaction between non-coding RNA and protein with end-to-end machine learning.Computational and structural biotechnology journal · 2024Article
- ncRPI-LGAT: Prediction of ncRNA-protein interactions with line graph attention network framework.Computational and structural biotechnology journal · 2023Article
- Oxidative Stress and Its Modulation by Ladostigil Alter the Expression of Abundant Long Non-Coding RNAs in SH-SY5Y Cells.Non-coding RNA · 2022Article
- CPIELA: Computational Prediction of Plant Protein-Protein Interactions by Ensemble Learning Approach From Protein Sequences and Evolutionary Information.Frontiers in genetics · 2022Article
- A long noncoding RNA-microRNA expression signature predicts metastatic signature in pheochromocytomas and paragangliomas.Endocrine · 2022Article
- LPI-HyADBS: a hybrid framework for lncRNA-protein interaction prediction integrating feature selection and classification.BMC bioinformatics · 2021Article
- Bioinformatic Tools for the Analysis and Prediction of ncRNA Interactions.International journal of molecular sciences · 2021Review
- Review
- LPI-deepGBDT: a multiple-layer deep framework based on gradient boosting decision trees for lncRNA-protein interaction identification.BMC bioinformatics · 2021Article
- PRPI-SC: an ensemble deep learning model for predicting plant lncRNA-protein interactions.BMC bioinformatics · 2021Article
- A Survey of Current Resources to Study lncRNA-Protein Interactions.Non-coding RNA · 2021Review
- Article
- Recent advances on the machine learning methods in predicting ncRNA-protein interactions.Molecular genetics and genomics : MGG · 2021Review
- Zooming in on protein-RNA interactions: a multi-level workflow to identify interaction partners.Biochemical Society transactions · 2020Review
Corrections and comments
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Authors and funding
6 authors.
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Abstract
Long non-coding RNAs (lncRNAs) play important roles in various biological processes, where lncRNA-protein interactions are usually involved. Therefore, identifying lncRNA-protein interactions is of great significance to understand the molecular functions of lncRNAs. Since the experiments to identify lncRNA-protein interactions are always costly and time consuming, computational methods are developed as alternative approaches. However, existing lncRNA-protein interaction predictors usually require prior knowledge of lncRNA-protein interactions with experimental evidences. Their performances are limited due to the number of known lncRNA-protein interactions. In this paper, we explored a novel way to predict lncRNA-protein interactions without direct prior knowledge. MiRNAs were picked up as mediators to estimate potential interactions between lncRNAs and proteins. By validating our results based on known lncRNA-protein interactions, our method achieved an AUROC (Area Under Receiver Operating Curve) of 0.821, which is comparable to the state-of-the-art methods. Moreover, our method achieved an improved AUROC of 0.852 by further expanding the training dataset. We believe that our method can be a useful supplement to the existing methods, as it provides an alternative way to estimate lncRNA-protein interactions in a heterogeneous network without direct prior knowledge. All data and codes of this work can be downloaded from GitHub (https://github.com/zyk2118216069/LncRNA-protein-interactions-prediction).
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