AIMC Topic: RNA, Untranslated

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DM-RPIs: Predicting ncRNA-protein interactions using stacked ensembling strategy.

Computational biology and chemistry Jul 6, 2019
ncRNA-protein interactions (ncRPIs) play an important role in a number of cellular processes, such as post-transcriptional modification, transcriptional regulation, disease progression and development. Since experimental methods are expensive and tim...
Support Vector Machine Proteins RNA, Untranslated Neural Networks, Computer Machine Learning
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Whole-genome deep-learning analysis identifies contribution of noncoding mutations to autism risk.

Nature genetics May 27, 2019
We address the challenge of detecting the contribution of noncoding mutations to disease with a deep-learning-based framework that predicts the specific regulatory effects and the deleterious impact of genetic variants. Applying this framework to 1,7...
Genomics Transcription, Genetic Genetic Predisposition to Disease RNA, Untranslated Genetic Association Studies Genes, Reporter Computational Biology Alleles Gene Expression Gene Expression Regulation Phenotype Mutation Genome, Human Humans Autism Spectrum Disorder Algorithms RNA Processing, Post-Transcriptional Deep Learning
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BGFE: A Deep Learning Model for ncRNA-Protein Interaction Predictions Based on Improved Sequence Information.

International journal of molecular sciences Feb 23, 2019
The interactions between ncRNAs and proteins are critical for regulating various cellular processes in organisms, such as gene expression regulations. However, due to limitations, including financial and material consumptions in recent experimental m...
Software Deep Learning ROC Curve Amino Acid Sequence RNA, Untranslated Position-Specific Scoring Matrices Protein Binding Computational Biology Databases, Protein
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PlaNC-TE: a comprehensive knowledgebase of non-coding RNAs and transposable elements in plants.

Database : the journal of biological databases and curation Jan 1, 2018
Transposable elements (TEs) play an essential role in the genetic variability of eukaryotic species. In plants, they may comprise up to 90% of the total genome. Non-coding RNAs (ncRNAs) are known to control gene expression and regulation. Although th...
Molecular Sequence Annotation RNA, Untranslated DNA Transposable Elements Phylogeny Databases, Genetic MicroRNAs Plants Knowledge Bases
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DotAligner: identification and clustering of RNA structure motifs.

Genome biology Dec 28, 2017
The diversity of processed transcripts in eukaryotic genomes poses a challenge for the classification of their biological functions. Sparse sequence conservation in non-coding sequences and the unreliable nature of RNA structure predictions further e...
Cluster Analysis Algorithms Genomics Nucleic Acid Conformation Computational Biology Reproducibility of Results RNA Nucleotide Motifs RNA-Binding Proteins Base Sequence RNA, Untranslated
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A Support Vector Machine based method to distinguish long non-coding RNAs from protein coding transcripts.

BMC genomics Oct 18, 2017
BACKGROUND: In recent years, a rapidly increasing number of RNA transcripts has been generated by thousands of sequencing projects around the world, creating enormous volumes of transcript data to be analyzed. An important problem to be addressed whe...
Open Reading Frames Zebrafish Molecular Sequence Annotation RNA, Untranslated RNA, Messenger Support Vector Machine Humans Animals Mice Computational Biology
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Imbalance-Aware Machine Learning for Predicting Rare and Common Disease-Associated Non-Coding Variants.

Scientific reports Jun 7, 2017
Disease and trait-associated variants represent a tiny minority of all known genetic variation, and therefore there is necessarily an imbalance between the small set of available disease-associated and the much larger set of non-deleterious genomic v...
Humans Genetic Variation Machine Learning RNA, Untranslated Software Algorithms Genetic Predisposition to Disease Reproducibility of Results Models, Genetic Genome-Wide Association Study Mutation
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Predicting the Organelle Location of Noncoding RNAs Using Pseudo Nucleotide Compositions.

Interdisciplinary sciences, computational life sciences Oct 13, 2016
Noncoding RNAs (ncRNAs) are implicated in various biological processes. Recent findings have demonstrated that the function of ncRNAs correlates with their provenance. Therefore, the recognition of ncRNAs from different organelle genomes will be help...
Support Vector Machine Nucleotides RNA, Untranslated Algorithms Computational Biology
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The Non-Coding RNA Ontology (NCRO): a comprehensive resource for the unification of non-coding RNA biology.

Journal of biomedical semantics May 4, 2016
In recent years, sequencing technologies have enabled the identification of a wide range of non-coding RNAs (ncRNAs). Unfortunately, annotation and integration of ncRNA data has lagged behind their identification. Given the large quantity of informat...
RNA, Untranslated Biological Ontologies
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Survey of Natural Language Processing Techniques in Bioinformatics.

Computational and mathematical methods in medicine Oct 7, 2015
Informatics methods, such as text mining and natural language processing, are always involved in bioinformatics research. In this study, we discuss text mining and natural language processing methods in bioinformatics from two perspectives. First, we...
Sequence Alignment Surveys and Questionnaires Protein Interaction Maps Computational Biology PubMed Humans Databases, Genetic Databases, Factual Data Mining Databases, Protein Animals RNA, Untranslated Natural Language Processing
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