AIMC Topic: Methylation

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H2Opred: a robust and efficient hybrid deep learning model for predicting 2'-O-methylation sites in human RNA.

Briefings in bioinformatics Nov 22, 2023
2'-O-methylation (2OM) is the most common post-transcriptional modification of RNA. It plays a crucial role in RNA splicing, RNA stability and innate immunity. Despite advances in high-throughput detection, the chemical stability of 2OM makes it diff...
Humans RNA Methylation Base Sequence Deep Learning Nucleotides
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DeepGpgs: a novel deep learning framework for predicting arginine methylation sites combined with Gaussian prior and gated self-attention mechanism.

Briefings in bioinformatics Mar 19, 2023
Protein arginine methylation is an important posttranslational modification (PTM) associated with protein functional diversity and pathological conditions including cancer. Identification of methylation binding sites facilitates a better understandin...
Methylation Arginine Deep Learning Proteins COVID-19 SARS-CoV-2 Humans
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Geographic encoding of transcripts enabled high-accuracy and isoform-aware deep learning of RNA methylation.

Nucleic acids research Oct 14, 2022
As the most pervasive epigenetic mark present on mRNA and lncRNA, N6-methyladenosine (m6A) RNA methylation regulates all stages of RNA life in various biological processes and disease mechanisms. Computational methods for deciphering RNA modification...
Protein Isoforms 3' Untranslated Regions RNA, Long Noncoding RNA Methylation Deep Learning RNA, Messenger
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NmRF: identification of multispecies RNA 2'-O-methylation modification sites from RNA sequences.

Briefings in bioinformatics Jan 17, 2022
2'-O-methylation (Nm) is a post-transcriptional modification of RNA that is catalyzed by 2'-O-methyltransferase and involves replacing the H on the 2'-hydroxyl group with a methyl group. The 2'-O-methylation modification site is detected in a variety...
Humans RNA Methylation Base Sequence Machine Learning Computational Biology
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DeepRMethylSite: a deep learning based approach for prediction of arginine methylation sites in proteins.

Molecular omics Oct 12, 2020
Methylation, which is one of the most prominent post-translational modifications on proteins, regulates many important cellular functions. Though several model-based methylation site predictors have been reported, all existing methods employ machine ...
Methylation Arginine Proteins Databases, Protein Algorithms Reproducibility of Results ROC Curve Protein Processing, Post-Translational Deep Learning Neural Networks, Computer
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Identification of 2'-O-methylation Site by Investigating Multi-feature Extracting Techniques.

Combinatorial chemistry & high throughput screening Jan 1, 2020
BACKGROUND: RNA methylation is a reversible post-transcriptional modification involving numerous biological processes. Ribose 2'-O-methylation is part of RNA methylation. It has shown that ribose 2'-O-methylation plays an important role in immune rec...
RNA Methylation Machine Learning Computational Biology
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[Methylation level of MEG3 and semen quality].

Zhonghua nan ke xue = National journal of andrology Nov 1, 2019
OBJECTIVE: To study the relationship between semen quality and the methylation level of maternally expressed gene 3 (MEG3) in sperm.
Spermatozoa Sperm Motility RNA, Long Noncoding Humans Genomic Imprinting Semen Analysis Male Methylation CpG Islands
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WHISTLE: a high-accuracy map of the human N6-methyladenosine (m6A) epitranscriptome predicted using a machine learning approach.

Nucleic acids research Apr 23, 2019
N 6-methyladenosine (m6A) is the most prevalent post-transcriptional modification in eukaryotes, and plays a pivotal role in various biological processes, such as splicing, RNA degradation and RNA-protein interaction. We report here a prediction fram...
Humans Internet RNA Protein Interaction Maps Machine Learning Transcriptome Sequence Analysis, RNA Epigenesis, Genetic Methylation High-Throughput Nucleotide Sequencing Adenosine
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ME-Class2 reveals context dependent regulatory roles for 5-hydroxymethylcytosine.

Nucleic acids research Mar 18, 2019
Since the discovery of 5-hydroxymethylcytosine (5hmC) as a prominent DNA modification found in mammalian genomes, an emergent question has been what role this mark plays in gene regulation. 5hmC is hypothesized to function as an intermediate in the d...
Organ Specificity Genome 5-Methylcytosine Humans Genes Datasets as Topic Methylation Animals Promoter Regions, Genetic Mice Databases, Genetic Machine Learning Sequence Analysis, RNA Sulfites Brain
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Deep-2'-O-Me: Predicting 2'-O-methylation sites by Convolutional Neural Networks.

Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference Jul 1, 2018
2'-O-methylation (2'-O-me) of ribose moiety is one of the significant and ubiquitous post-transcriptional RNA modifications which is vital for metabolism and functions of RNA. Although recent development of new technology (Nmseq) enabled biologists t...
RNA Methylation Neural Networks, Computer Algorithms
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