AIMC Topic: Base Sequence

Clear Filters Showing 91 to 100 of 172 articles

Prediction of binding property of RNA-binding proteins using multi-sized filters and multi-modal deep convolutional neural network.

PloS one Apr 26, 2019
RNA-binding proteins (RBPs) are important in gene expression regulations by post-transcriptional control of RNAs and immune system development and its function. Due to the help of sequencing technology, numerous RNA sequences are newly discovered wit...
Neural Networks, Computer Base Sequence Nucleotide Motifs Deep Learning Protein Binding Area Under Curve
View on PubMed DOI

Evolutionarily informed deep learning methods for predicting relative transcript abundance from DNA sequence.

Proceedings of the National Academy of Sciences of the United States of America Mar 6, 2019
Deep learning methodologies have revolutionized prediction in many fields and show potential to do the same in molecular biology and genetics. However, applying these methods in their current forms ignores evolutionary dependencies within biological ...
Sequence Analysis, DNA Evolution, Molecular DNA Transcription, Genetic Gene Expression Regulation Base Sequence Deep Learning Models, Theoretical
View on PubMed DOI

A multi-task convolutional deep neural network for variant calling in single molecule sequencing.

Nature communications Mar 1, 2019
The accurate identification of DNA sequence variants is an important, but challenging task in genomics. It is particularly difficult for single molecule sequencing, which has a per-nucleotide error rate of ~5-15%. Meeting this demand, we developed Cl...
Genome, Human Humans Genotyping Techniques Genomics INDEL Mutation Genotype Polymorphism, Single Nucleotide Nanopores Sequence Analysis, DNA Computational Biology Neural Networks, Computer DNA Mutational Analysis Software Base Sequence Genome-Wide Association Study
View on PubMed DOI

Adaboost-SVM-based probability algorithm for the prediction of all mature miRNA sites based on structured-sequence features.

Scientific reports Feb 6, 2019
The significant role of microRNAs (miRNAs) in various biological processes and diseases has been widely studied and reported in recent years. Several computational methods associated with mature miRNA identification suffer various limitations involvi...
Humans Algorithms Base Sequence Computational Biology RNA Precursors Support Vector Machine MicroRNAs
View on PubMed DOI

Double-integrated mimic enzymes for the visual screening of Microcystin-LR: Copper hydroxide nanozyme and G-quadruplex/hemin DNAzyme.

Analytica chimica acta Dec 15, 2018
Recently, mimic enzymes have obtained particular interest by their high activity, stability, and biocompatibility. In this work, by coupling copper hydroxide nanozyme and G-quadruplex/hemin DNAzyme to form a double-integrated mimic enzyme, a visual, ...
Nanostructures Base Sequence Biosensing Techniques DNA, Catalytic Immunoassay Biomimetic Materials Copper G-Quadruplexes Hemin Marine Toxins Hydroxides Microcystins
View on PubMed DOI

SFPEL-LPI: Sequence-based feature projection ensemble learning for predicting LncRNA-protein interactions.

PLoS computational biology Dec 11, 2018
LncRNA-protein interactions play important roles in post-transcriptional gene regulation, poly-adenylation, splicing and translation. Identification of lncRNA-protein interactions helps to understand lncRNA-related activities. Existing computational ...
Databases, Nucleic Acid RNA Processing, Post-Transcriptional Databases, Protein Amino Acid Sequence Base Sequence Humans Machine Learning Algorithms RNA-Binding Proteins Protein Binding RNA, Long Noncoding Computational Biology
View on PubMed DOI

Smart Plasmonic Nanorobot for Real-Time Monitoring Cytochrome c Release and Cell Acidification in Apoptosis during Electrostimulation.

Analytical chemistry Dec 4, 2018
Cytochrome c (Cyt c) release and cellular pH change are two important mediators of apoptosis. Effective methods to regulate or monitor such two events are therefore highly desired for apoptosis research and cancer cell therapy. Herein, we exploited e...
Benzoates Electric Stimulation Cytochromes c Nanotechnology Sulfhydryl Compounds Base Sequence Animals Aptamers, Nucleotide Apoptosis Membrane Potential, Mitochondrial Hydrogen-Ion Concentration Cell Line Robotics Humans
View on PubMed DOI

Deep learning architectures for prediction of nucleosome positioning from sequences data.

BMC bioinformatics Nov 20, 2018
BACKGROUND: Nucleosomes are DNA-histone complex, each wrapping about 150 pairs of double-stranded DNA. Their function is fundamental for one of the primary functions of Chromatin i.e. packing the DNA into the nucleus of the Eukaryote cells. Several b...
Nucleosomes Base Sequence Reproducibility of Results Saccharomyces cerevisiae Animals Humans Databases, Nucleic Acid Deep Learning Neural Networks, Computer ROC Curve
View on PubMed DOI

Predictable and precise template-free CRISPR editing of pathogenic variants.

Nature Nov 7, 2018
Following Cas9 cleavage, DNA repair without a donor template is generally considered stochastic, heterogeneous and impractical beyond gene disruption. Here, we show that template-free Cas9 editing is predictable and capable of precise repair to a pre...
Fibroblasts CRISPR-Cas Systems Alleles Base Sequence Gene Editing HCT116 Cells HEK293 Cells Humans Machine Learning Reproducibility of Results Menkes Kinky Hair Syndrome CRISPR-Associated Protein 9 K562 Cells Templates, Genetic Hermanski-Pudlak Syndrome Substrate Specificity DNA Repair
View on PubMed DOI

CamurWeb: a classification software and a large knowledge base for gene expression data of cancer.

BMC bioinformatics Oct 15, 2018
BACKGROUND: The high growth of Next Generation Sequencing data currently demands new knowledge extraction methods. In particular, the RNA sequencing gene expression experimental technique stands out for case-control studies on cancer, which can be ad...
Gene Expression Regulation, Neoplastic Knowledge Bases Base Sequence Genome, Human Humans Genes, Neoplasm Software Neoplasms Sequence Analysis, RNA
View on PubMed DOI
Popular Topics
Recent Journals