AIMC Topic: RNA

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Quantitative profiling N1-methyladenosine (m1A) RNA methylation from Oxford nanopore direct RNA sequencing data.

Methods (San Diego, Calif.) May 18, 2024
With the recent advanced direct RNA sequencing technique that proposed by the Oxford Nanopore Technologies, RNA modifications can be detected and profiled in a simple and straightforward manner. Majority nanopore-based modification studies were devot...
RNA Methylation RNA Processing, Post-Transcriptional Nanopore Sequencing Workflow RNA HEK293 Cells Adenosine Methylation Machine Learning Algorithms Sequence Analysis, RNA Humans
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Deep Learning for Elucidating Modifications to RNA-Status and Challenges Ahead.

Genes May 15, 2024
RNA-binding proteins and chemical modifications to RNA play vital roles in the co- and post-transcriptional regulation of genes. In order to fully decipher their biological roles, it is an essential task to catalogue their precise target locations al...
RNA, Messenger RNA-Binding Proteins RNA Humans Deep Learning Nucleic Acid Conformation
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MLm5C: A high-precision human RNA 5-methylcytosine sites predictor based on a combination of hybrid machine learning models.

Methods (San Diego, Calif.) May 8, 2024
RNA modification serves as a pivotal component in numerous biological processes. Among the prevalent modifications, 5-methylcytosine (m5C) significantly influences mRNA export, translation efficiency and cell differentiation and are also associated w...
Humans Machine Learning RNA 5-Methylcytosine RNA Processing, Post-Transcriptional Algorithms Computational Biology
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Discrimination of Genetic Biomarkers of Disease through Machine-Learning-Based Hypothesis Testing of Direct SERS Spectra of DNA and RNA.

ACS sensors Apr 29, 2024
Cancer is globally a leading cause of death that would benefit from diagnostic approaches detecting it in its early stages. However, despite much research and investment, cancer early diagnosis is still underdeveloped. Owing to its high sensitivity, ...
DNA Metal Nanoparticles Genetic Markers RNA Silver Machine Learning Spectrum Analysis, Raman MicroRNAs DNA, Single-Stranded Humans
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Explicate molecular landscape of combined pulmonary fibrosis and emphysema through explainable artificial intelligence: a comprehensive analysis of ILD and COPD interactions using RNA from whole lung homogenates.

Medical & biological engineering & computing Apr 22, 2024
Combined pulmonary fibrosis and emphysema (CPFE) presents a unique challenge in respiratory disorders, merging features of interstitial lung disease (ILD) and chronic obstructive pulmonary disease (COPD). Using the random forest algorithm, our study ...
Pulmonary Fibrosis Lung Diseases, Interstitial RNA Pulmonary Emphysema Lung Gene Expression Profiling MicroRNAs Machine Learning Pulmonary Disease, Chronic Obstructive Humans Artificial Intelligence
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DEBFold: Computational Identification of RNA Secondary Structures for Sequences across Structural Families Using Deep Learning.

Journal of chemical information and modeling Apr 22, 2024
It is now known that RNAs play more active roles in cellular pathways beyond simply serving as transcription templates. These biological mechanisms might be mediated by higher RNA stereo conformations, triggering the need to understand RNA secondary ...
Base Sequence Nucleic Acid Conformation Thermodynamics Computational Biology Deep Learning Models, Molecular RNA
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Sequence based model using deep neural network and hybrid features for identification of 5-hydroxymethylcytosine modification.

Scientific reports Apr 20, 2024
RNA modifications are pivotal in the development of newly synthesized structures, showcasing a vast array of alterations across various RNA classes. Among these, 5-hydroxymethylcytosine (5HMC) stands out, playing a crucial role in gene regulation and...
Bayes Theorem RNA 5-Methylcytosine Algorithms Support Vector Machine Neural Networks, Computer
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RNA3DB: A structurally-dissimilar dataset split for training and benchmarking deep learning models for RNA structure prediction.

Journal of molecular biology Mar 27, 2024
With advances in protein structure prediction thanks to deep learning models like AlphaFold, RNA structure prediction has recently received increased attention from deep learning researchers. RNAs introduce substantial challenges due to the sparser a...
Nucleic Acid Conformation Models, Molecular RNA Software Computational Biology Deep Learning Databases, Protein
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BioDeepfuse: a hybrid deep learning approach with integrated feature extraction techniques for enhanced non-coding RNA classification.

RNA biology Mar 25, 2024
The accurate classification of non-coding RNA (ncRNA) sequences is pivotal for advanced non-coding genome annotation and analysis, a fundamental aspect of genomics that facilitates understanding of ncRNA functions and regulatory mechanisms in various...
RNA, Untranslated Deep Learning Neural Networks, Computer RNA Algorithms
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An RNA origami robot that traps and releases a fluorescent aptamer.

Science advances Mar 20, 2024
RNA nanotechnology aims to use RNA as a programmable material to create self-assembling nanodevices for application in medicine and synthetic biology. The main challenge is to develop advanced RNA robotic devices that both sense, compute, and actuate...
Cryoelectron Microscopy Robotics Coloring Agents Oligonucleotides RNA Nanostructures Nucleic Acid Conformation Nanotechnology
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