AIMC Topic: Nucleotides

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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...
Computational Biology Support Vector Machine Nucleotides Algorithms RNA, Untranslated
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FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation.

Journal of biomedical semantics Jun 13, 2016
BACKGROUND: Nucleotide and protein sequence feature annotations are essential to understand biology on the genomic, transcriptomic, and proteomic level. Using Semantic Web technologies to query biological annotations, there was no standard that descr...
Semantics Biological Ontologies Molecular Sequence Annotation Databases, Protein Nucleotides Reference Books Humans Fuzzy Logic Proteins Databases, Genetic
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NBSPred: a support vector machine-based high-throughput pipeline for plant resistance protein NBSLRR prediction.

Bioinformatics (Oxford, England) Dec 9, 2015
UNLABELLED: The nucleotide binding site leucine-rich repeats (NBSLRRs) belong to one of the largest known families of disease resistance genes that encode resistance proteins (R-protein) against the pathogens of plants. Various defence mechanisms hav...
Arabidopsis Plant Diseases Plant Proteins Conserved Sequence Support Vector Machine Amino Acid Sequence Solanum lycopersicum Nucleotides
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iTIS-PseKNC: Identification of Translation Initiation Site in human genes using pseudo k-tuple nucleotides composition.

Computers in biology and medicine Sep 25, 2015
Translation is an essential genetic process for understanding the mechanism of gene expression. Due to the large number of protein sequences generated in the post-genomic era, conventional methods are unable to identify Translation Initiation Site (T...
Probability Machine Learning Humans Pattern Recognition, Automated Software Peptide Chain Initiation, Translational Support Vector Machine Neural Networks, Computer Sequence Analysis, DNA Reproducibility of Results Algorithms Nucleotides Genomics
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Chemometrics for comprehensive analysis of nucleobases, nucleosides, and nucleotides in Siraitiae Fructus by hydrophilic interaction ultra high performance liquid chromatography coupled with triple-quadrupole linear ion-trap tandem mass spectrometry.

Journal of separation science Sep 10, 2015
A rapid and sensitive hydrophilic interaction ultra high performance liquid chromatography coupled with triple-quadrupole linear ion-trap tandem mass spectrometry method was validated for the simultaneous determination of 20 nucleobases, nucleosides,...
Neural Networks, Computer Cluster Analysis Nucleotides Ions Fruit Nucleosides Principal Component Analysis Chromatography, High Pressure Liquid Drugs, Chinese Herbal Hydrophobic and Hydrophilic Interactions Tandem Mass Spectrometry
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Prediction of Nucleotide Binding Peptides Using Star Graph Topological Indices.

Molecular informatics Aug 5, 2015
The nucleotide binding proteins are involved in many important cellular processes, such as transmission of genetic information or energy transfer and storage. Therefore, the screening of new peptides for this biological function is an important resea...
Models, Molecular Machine Learning Nucleotides Peptides
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Prediction of hydrogen and carbon chemical shifts from RNA using database mining and support vector regression.

Journal of biomolecular NMR Jul 4, 2015
The Biological Magnetic Resonance Data Bank (BMRB) contains NMR chemical shift depositions for over 200 RNAs and RNA-containing complexes. We have analyzed the (1)H NMR and (13)C chemical shifts reported for non-exchangeable protons of 187 of these R...
Automation Carbon Support Vector Machine Calibration Regression Analysis Nucleotides Data Mining Hydrogen RNA Databases as Topic Information Storage and Retrieval
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CADD v1.7: using protein language models, regulatory CNNs and other nucleotide-level scores to improve genome-wide variant predictions.

Nucleic acids research Jan 5, 2024
Machine Learning-based scoring and classification of genetic variants aids the assessment of clinical findings and is employed to prioritize variants in diverse genetic studies and analyses. Combined Annotation-Dependent Depletion (CADD) is one of th...
Genetic Variation Nucleotides Genome, Human Machine Learning Software Humans
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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...
RNA Methylation Base Sequence Deep Learning Nucleotides Humans
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RNAdegformer: accurate prediction of mRNA degradation at nucleotide resolution with deep learning.

Briefings in bioinformatics Jan 19, 2023
Messenger RNA-based therapeutics have shown tremendous potential, as demonstrated by the rapid development of messenger RNA based vaccines for COVID-19. Nevertheless, distribution of mRNA vaccines worldwide has been hampered by mRNA's inherent therma...
RNA, Messenger Nucleotides COVID-19 Humans RNA Stability Deep Learning RNA COVID-19 Vaccines
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