AIMC Topic: RNA-Binding Proteins

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PRPI-SC: an ensemble deep learning model for predicting plant lncRNA-protein interactions.

BMC bioinformatics Aug 24, 2021
BACKGROUND: Plant long non-coding RNAs (lncRNAs) play vital roles in many biological processes mainly through interactions with RNA-binding protein (RBP). To understand the function of lncRNAs, a fundamental method is to identify which types of prote...
RNA-Binding Proteins RNA, Long Noncoding Neural Networks, Computer Deep Learning Computational Biology
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Identification of biomarkers for acute leukemia via machine learning-based stemness index.

Gene Aug 16, 2021
Traditional methods to understand leukemia stem cell (LSC)'s biological characteristics include constructing LSC-like cells and mouse models by transgenic or knock-in methods. However, there are some potential pitfalls in using this method, such as r...
Male Databases, Genetic Humans RNA, Messenger Transcriptome Adaptor Proteins, Signal Transducing Machine Learning RNA-Binding Proteins Gene Regulatory Networks Leukemia Prognosis Neoplastic Stem Cells Female Adult Biomarkers, Tumor Leukemia, Myeloid, Acute
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DeepDRBP-2L: A New Genome Annotation Predictor for Identifying DNA-Binding Proteins and RNA-Binding Proteins Using Convolutional Neural Network and Long Short-Term Memory.

IEEE/ACM transactions on computational biology and bioinformatics Aug 6, 2021
DNA-binding proteins (DBPs) and RNA-binding proteins (RBPs) are two kinds of crucial proteins, which are associated with various cellule activities and some important diseases. Accurate identification of DBPs and RBPs facilitate both theoretical rese...
Algorithms Genomics RNA-Binding Proteins Neural Networks, Computer DNA-Binding Proteins Molecular Sequence Annotation
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Loop-mediated isothermal amplification (LAMP) and machine learning application for early pregnancy detection using bovine vaginal mucosal membrane.

Biochemical and biophysical research communications Jul 10, 2021
An early and accurate pregnancy diagnosis method is required to improve the reproductive performance of cows. Here we developed an easy pregnancy detection method using vaginal mucosal membrane (VMM) with application of Reverse Transcription-Loop-med...
Gene Expression Mucous Membrane Vagina Membrane Proteins Nucleic Acid Amplification Techniques Adaptor Proteins, Signal Transducing CA-125 Antigen Ubiquitins Reproducibility of Results Sensitivity and Specificity Animals Cattle RNA-Binding Proteins Molecular Diagnostic Techniques Biomarkers Pregnancy Female Machine Learning Cytokines
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Kernel machine SNP set analysis finds the association of BUD13, ZPR1, and APOA5 variants with metabolic syndrome in Tehran Cardio-metabolic Genetics Study.

Scientific reports May 13, 2021
Metabolic syndrome (MetS) is one of the most important risk factors for cardiovascular disease. The 11p23.3 chromosomal region plays a potential role in the pathogenesis of MetS. The present study aimed to assess the association between 18 single nuc...
RNA-Binding Proteins Male Metabolic Syndrome Genetic Predisposition to Disease Humans Iran Polymorphism, Single Nucleotide Machine Learning Membrane Transport Proteins Female Apolipoprotein A-V Cardiometabolic Risk Factors
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Predicting dynamic cellular protein-RNA interactions by deep learning using in vivo RNA structures.

Cell research Feb 23, 2021
Interactions with RNA-binding proteins (RBPs) are integral to RNA function and cellular regulation, and dynamically reflect specific cellular conditions. However, presently available tools for predicting RBP-RNA interactions employ RNA sequence and/o...
Transcriptome Deep Learning Protein Binding RNA-Binding Proteins RNA Binding Sites Humans
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Construction and analysis of a joint diagnosis model of random forest and artificial neural network for heart failure.

Aging Dec 26, 2020
Heart failure is a global health problem that affects approximately 26 million people worldwide. As conventional diagnostic techniques for heart failure have been in practice with various limitations, it is necessary to develop novel diagnostic model...
Receptors, Interleukin Databases, Genetic Machine Learning Serpins Humans Heart Failure RNA Splicing Factors Transcriptome Neural Networks, Computer Lipocalins RNA-Binding Proteins Heme Oxygenase (Decyclizing)
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Deep neural networks for inferring binding sites of RNA-binding proteins by using distributed representations of RNA primary sequence and secondary structure.

BMC genomics Dec 17, 2020
BACKGROUND: RNA binding proteins (RBPs) play a vital role in post-transcriptional processes in all eukaryotes, such as splicing regulation, mRNA transport, and modulation of mRNA translation and decay. The identification of RBP binding sites is a cru...
RNA-Binding Proteins RNA Binding Sites Neural Networks, Computer Protein Binding
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RBPsuite: RNA-protein binding sites prediction suite based on deep learning.

BMC genomics Dec 9, 2020
BACKGROUND: RNA-binding proteins (RBPs) play crucial roles in various biological processes. Deep learning-based methods have been demonstrated powerful on predicting RBP sites on RNAs. However, the training of deep learning models is very time-intens...
RNA Binding Sites Deep Learning Protein Binding RNA-Binding Proteins
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DeepA-RBPBS: A hybrid convolution and recurrent neural network combined with attention mechanism for predicting RBP binding site.

Journal of biomolecular structure & dynamics Dec 4, 2020
It's important to infer the binding site of RNA-binding proteins (RBP) for understanding the interaction between RBP and its RNA targets and decipher the mechanisms of transcriptional regulation. However, experimental detection of RBP binding sites i...
RNA Binding Sites Protein Binding RNA-Binding Proteins Neural Networks, Computer
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