AIMC Topic: Metagenome

Clear Filters Showing 21 to 30 of 79 articles

Comprehensive Functional Annotation of Metagenomes and Microbial Genomes Using a Deep Learning-Based Method.

mSystems Mar 7, 2023
Comprehensive protein function annotation is essential for understanding microbiome-related disease mechanisms in the host organisms. However, a large portion of human gut microbial proteins lack functional annotation. Here, we have developed a new m...
Molecular Sequence Annotation Metagenome Genome, Microbial Deep Learning Microbiota Humans
View on PubMed DOI

RNN-VirSeeker: A Deep Learning Method for Identification of Short Viral Sequences From Metagenomes.

IEEE/ACM transactions on computational biology and bioinformatics Jun 3, 2022
Viruses are the most abundant biological entities on earth, and play vital roles in many aspects of microbial communities. As major human pathogens, viruses have caused huge mortality and morbidity to human society in history. Metagenomic sequencing ...
Metagenomics Viruses Metagenome Deep Learning Microbiota Humans
View on PubMed DOI

MarkerML - Marker Feature Identification in Metagenomic Datasets Using Interpretable Machine Learning.

Journal of molecular biology Apr 18, 2022
Identification of environment specific marker-features is one of the key objectives of many metagenomic studies. It aims to identify such features in microbiome datasets that may serve as markers of the contrasting or comparable states. Hypothesis te...
Metagenomics Datasets as Topic Humans Internet Use Metagenome Machine Learning Reproducibility of Results
View on PubMed DOI

Multimodal deep learning applied to classify healthy and disease states of human microbiome.

Scientific reports Jan 17, 2022
Metagenomic sequencing methods provide considerable genomic information regarding human microbiomes, enabling us to discover and understand microbial diseases. Compositional differences have been reported between patients and healthy people, which co...
Humans Inflammatory Bowel Diseases Colorectal Neoplasms Microbiota Healthy Volunteers Metagenomics Diabetes Mellitus, Type 2 Liver Cirrhosis Deep Learning Metagenome Genome, Microbial
View on PubMed DOI

NGS read classification using AI.

PloS one Dec 22, 2021
Clinical metagenomics is a powerful diagnostic tool, as it offers an open view into all DNA in a patient's sample. This allows the detection of pathogens that would slip through the cracks of classical specific assays. However, due to this unspecific...
Viruses Metagenome DNA, Bacterial Algorithms High-Throughput Nucleotide Sequencing Humans Animals DNA, Viral DNA Metagenomics Neural Networks, Computer Bacteria
View on PubMed DOI

Metagenomic Sequencing Analysis for Acne Using Machine Learning Methods Adapted to Single or Multiple Data.

Computational and mathematical methods in medicine Nov 13, 2021
The human health status can be assessed by the means of research and analysis of the human microbiome. Acne is a common skin disease whose morbidity increases year by year. The lipids which influence acne to a large extent are studied by metagenomic ...
Acne Vulgaris Humans Metagenome Canonical Correlation Analysis Machine Learning Metagenomics Case-Control Studies Face Principal Component Analysis Skin Microbiota Computational Biology Lipids
View on PubMed DOI

SquiggleNet: real-time, direct classification of nanopore signals.

Genome biology Oct 27, 2021
We present SquiggleNet, the first deep-learning model that can classify nanopore reads directly from their electrical signals. SquiggleNet operates faster than DNA passes through the pore, allowing real-time classification and read ejection. Using 1 ...
Metagenome Nanopore Sequencing Humans Deep Learning Long Interspersed Nucleotide Elements Respiratory System DNA, Bacterial
View on PubMed DOI

A Virtual Machine Platform for Non-Computer Professionals for Using Deep Learning to Classify Biological Sequences of Metagenomic Data.

Journal of visualized experiments : JoVE Sep 25, 2021
A variety of biological sequence classification tasks, such as species classification, gene function classification and viral host classification, are expected processes in many metagenomic data analyses. Since metagenomic data contain a large number...
Deep Learning Metagenomics Metagenome Humans Algorithms
View on PubMed DOI

Protein tertiary structure prediction and refinement using deep learning and Rosetta in CASP14.

Proteins Aug 17, 2021
The trRosetta structure prediction method employs deep learning to generate predicted residue-residue distance and orientation distributions from which 3D models are built. We sought to improve the method by incorporating as inputs (in addition to se...
Computational Biology Proteins Deep Learning Sequence Analysis, Protein Metagenome Protein Structure, Tertiary Humans Software
View on PubMed DOI

MetaVelvet-DL: a MetaVelvet deep learning extension for de novo metagenome assembly.

BMC bioinformatics Jun 2, 2021
BACKGROUND: The increasing use of whole metagenome sequencing has spurred the need to improve de novo assemblers to facilitate the discovery of unknown species and the analysis of their genomic functions. MetaVelvet-SL is a short-read de novo metagen...
Software Algorithms Genomics Sequence Analysis, DNA Deep Learning High-Throughput Nucleotide Sequencing Metagenome Metagenomics
View on PubMed DOI
Popular Topics
Recent Journals