AIMC Topic: Nucleotides
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Sequence based predictor for discrimination of enhancer and their types by applying general form of Chou's trinucleotide composition.
Computer methods and programs in biomedicine
May 26, 2017
BACKGROUND AND OBJECTIVES: Enhancers are pivotal DNA elements, which are widely used in eukaryotes for activation of transcription genes. On the basis of enhancer strength, they are further classified into two groups; strong enhancers and weak enhanc...
Identifying N-methyladenosine sites using multi-interval nucleotide pair position specificity and support vector machine.
Scientific reports
Apr 25, 2017
N6-methyladenosine (mA) refers to methylation of the adenosine nucleotide acid at the nitrogen-6 position. It plays an important role in a series of biological processes, such as splicing events, mRNA exporting, nascent mRNA synthesis, nuclear transl...
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...
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...
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...
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...
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,...
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...
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...
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...
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