AIMC Topic: RNA-Binding Proteins

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A web server for identifying circRNA-RBP variable-length binding sites based on stacked generalization ensemble deep learning network.

Methods (San Diego, Calif.) Jul 8, 2022
Circular RNA (circRNA) can exert biological functions by interacting with RNA-binding protein (RBP), and some deep learning-based methods have been developed to predict RBP binding sites on circRNA. However, most of these methods identify circRNA-RBP...
RNA-Binding Proteins Binding Sites RNA, Circular Algorithms Deep Learning
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DeepPN: a deep parallel neural network based on convolutional neural network and graph convolutional network for predicting RNA-protein binding sites.

BMC bioinformatics Jun 29, 2022
BACKGROUND: Addressing the laborious nature of traditional biological experiments by using an efficient computational approach to analyze RNA-binding proteins (RBPs) binding sites has always been a challenging task. RBPs play a vital role in post-tra...
RNA Binding Sites Protein Binding RNA-Binding Proteins Neural Networks, Computer
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DeepBtoD: Improved RNA-binding proteins prediction via integrated deep learning.

Journal of bioinformatics and computational biology Apr 21, 2022
RNA-binding proteins (RBPs) have crucial roles in various cellular processes such as alternative splicing and gene regulation. Therefore, the analysis and identification of RBPs is an essential issue. However, although many computational methods have...
RNA-Binding Proteins RNA Protein Binding Binding Sites Computational Biology Base Sequence Deep Learning
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Inferring RNA-binding protein target preferences using adversarial domain adaptation.

PLoS computational biology Feb 24, 2022
Precise identification of target sites of RNA-binding proteins (RBP) is important to understand their biochemical and cellular functions. A large amount of experimental data is generated by in vivo and in vitro approaches. The binding preferences det...
RNA-Binding Proteins Nucleotides Acclimatization Neural Networks, Computer Binding Sites
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CRBPDL: Identification of circRNA-RBP interaction sites using an ensemble neural network approach.

PLoS computational biology Jan 20, 2022
Circular RNAs (circRNAs) are non-coding RNAs with a special circular structure produced formed by the reverse splicing mechanism. Increasing evidence shows that circular RNAs can directly bind to RNA-binding proteins (RBP) and play an important role ...
Binding Sites RNA Splicing RNA-Binding Proteins Models, Biological RNA, Circular Neural Networks, Computer Machine Learning Animals Computational Biology Algorithms
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Improved Predicting of The Sequence Specificities of RNA Binding Proteins by Deep Learning.

IEEE/ACM transactions on computational biology and bioinformatics Dec 8, 2021
RNA-binding proteins (RBPs) have a significant role in various regulatory tasks. However, the mechanism by which RBPs identify the subsequence target RNAs is still not clear. In recent years, several machine and deep learning-based computational mode...
Humans Deep Learning Computational Biology Animals Amino Acid Motifs RNA-Binding Proteins Sequence Analysis, Protein Conserved Sequence
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LGFC-CNN: Prediction of lncRNA-Protein Interactions by Using Multiple Types of Features through Deep Learning.

Genes Oct 24, 2021
Long noncoding RNA (lncRNA) plays a crucial role in many critical biological processes and participates in complex human diseases through interaction with proteins. Considering that identifying lncRNA-protein interactions through experimental methods...
Humans Neural Networks, Computer Deep Learning Protein Interaction Maps Animals Datasets as Topic RNA-Binding Proteins RNA, Long Noncoding Gene Regulatory Networks Computational Biology
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miRbiom: Machine-learning on Bayesian causal nets of RBP-miRNA interactions successfully predicts miRNA profiles.

PloS one Oct 12, 2021
Formation of mature miRNAs and their expression is a highly controlled process. It is very much dependent upon the post-transcriptional regulatory events. Recent findings suggest that several RNA binding proteins beyond Drosha/Dicer are involved in t...
RNA-Binding Proteins User-Computer Interface Humans Databases, Genetic Protein Binding Machine Learning MicroRNAs Bayes Theorem
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A novel lncRNA-protein interaction prediction method based on deep forest with cascade forest structure.

Scientific reports Sep 23, 2021
Long noncoding RNAs (lncRNAs) regulate many biological processes by interacting with corresponding RNA-binding proteins. The identification of lncRNA-protein Interactions (LPIs) is significantly important to well characterize the biological functions...
Computational Biology RNA-Binding Proteins Humans Machine Learning Datasets as Topic RNA, Long Noncoding Arabidopsis Zea mays
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rBPDL:Predicting RNA-Binding Proteins Using Deep Learning.

IEEE journal of biomedical and health informatics Sep 3, 2021
RNA-binding protein (RBP) is a powerful and wide-ranging regulator that plays an important role in cell development, differentiation, metabolism, health and disease. The prediction of RBPs provides valuable guidance for biologists. Although experimen...
RNA-Binding Proteins Neural Networks, Computer Deep Learning Binding Sites Protein Binding
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