AIMC Topic: RNA-Binding Proteins

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iDRBP-ECHF: Identifying DNA- and RNA-binding proteins based on extensible cubic hybrid framework.

Computers in biology and medicine Aug 13, 2022
Proteins interact with nucleic acids to regulate the life activities of organisms. Therefore, how to accurately and efficiently identify nucleic acid-binding proteins (NABPs) is particularly significant. Some sequence-based computational methods have...
Machine Learning Algorithms DNA DNA-Binding Proteins Binding Sites Computational Biology RNA-Binding Proteins
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Predicting RBP Binding Sites of RNA With High-Order Encoding Features and CNN-BLSTM Hybrid Model.

IEEE/ACM transactions on computational biology and bioinformatics Aug 8, 2022
RNA binding protein (RBP) is extensively involved in various cellular regulatory processes through the interaction with RNAs. Capturing the RBP binding preferences is fundamental for revealing the pathogenesis of complex diseases. Many experimental d...
Neural Networks, Computer Protein Binding RNA-Binding Proteins RNA Binding Sites
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IDRBP-PPCT: Identifying Nucleic Acid-Binding Proteins Based on Position-Specific Score Matrix and Position-Specific Frequency Matrix Cross Transformation.

IEEE/ACM transactions on computational biology and bioinformatics Aug 8, 2022
DNA-binding proteins (DBPs) and RNA-binding proteins (RBPs) are two important nucleic acid-binding proteins (NABPs), which play important roles in biological processes such as replication, translation and transcription of genetic material. Some prote...
Amino Acid Sequence Position-Specific Scoring Matrices RNA-Binding Proteins Algorithms Support Vector Machine Computational Biology DNA DNA-Binding Proteins Databases, Protein
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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...
Deep Learning RNA-Binding Proteins Algorithms Binding Sites RNA, Circular
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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...
Binding Sites Neural Networks, Computer RNA-Binding Proteins RNA Protein Binding
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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...
Binding Sites RNA Deep Learning Base Sequence Protein Binding Computational Biology RNA-Binding Proteins
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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...
Nucleotides Acclimatization Binding Sites Neural Networks, Computer RNA-Binding Proteins
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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 ...
Machine Learning Animals RNA Splicing Algorithms Models, Biological RNA, Circular RNA-Binding Proteins Computational Biology Binding Sites Neural Networks, Computer
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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 Sequence Analysis, Protein Animals Deep Learning Conserved Sequence RNA-Binding Proteins Computational Biology Amino Acid Motifs
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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...
RNA, Long Noncoding Datasets as Topic Animals Computational Biology Humans Protein Interaction Maps RNA-Binding Proteins Deep Learning Neural Networks, Computer Gene Regulatory Networks
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