AIMC Topic: Microbiota

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Machine learning for microbiologists.

Nature reviews. Microbiology Nov 15, 2023
Machine learning is increasingly important in microbiology where it is used for tasks such as predicting antibiotic resistance and associating human microbiome features with complex host diseases. The applications in microbiology are quickly expandin...
Humans Machine Learning Microbiota
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Alternative states in microbial communities during artificial aeration: Proof of incubation experiment and development of recurrent neural network models.

Water research Nov 4, 2023
Artificial aeration, a widely used method of restoring the aquatic ecological environment by enhancing the re-oxygenation capacity, typically relies upon empirical models to predict ecological dynamics and determine the operating scheme of the aerati...
Time Factors Microbiota Neural Networks, Computer
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Investigation of machine learning algorithms for taxonomic classification of marine metagenomes.

Microbiology spectrum Sep 11, 2023
Taxonomic profiling of microbial communities is essential to model microbial interactions and inform habitat conservation. This work develops approaches in constructing training/testing data sets from publicly available marine metagenomes and evaluat...
Metagenome Aquatic Organisms Machine Learning Neural Networks, Computer Classification Microbiota Models, Biological
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EnsDeepDP: An Ensemble Deep Learning Approach for Disease Prediction Through Metagenomics.

IEEE/ACM transactions on computational biology and bioinformatics Apr 3, 2023
A growing number of studies show that the human microbiome plays a vital role in human health and can be a crucial factor in predicting certain human diseases. However, microbiome data are often characterized by the limited samples and high-dimension...
Machine Learning Algorithms Humans Microbiota Metagenomics Deep Learning
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DL-TODA: A Deep Learning Tool for Omics Data Analysis.

Biomolecules Mar 24, 2023
Metagenomics is a technique for genome-wide profiling of microbiomes; this technique generates billions of DNA sequences called reads. Given the multiplication of metagenomic projects, computational tools are necessary to enable the efficient and acc...
Algorithms Bacteria Deep Learning Humans Neural Networks, Computer Metagenome Microbiota
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Unlocking the microbial studies through computational approaches: how far have we reached?

Environmental science and pollution research international Mar 15, 2023
The metagenomics approach accelerated the study of genetic information from uncultured microbes and complex microbial communities. In silico research also facilitated an understanding of protein-DNA interactions, protein-protein interactions, docking...
DNA Metagenomics Microbiota Artificial Intelligence Proteomics
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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...
Genome, Microbial Microbiota Deep Learning Metagenome Molecular Sequence Annotation Humans
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The need for an integrated multi-OMICs approach in microbiome science in the food system.

Comprehensive reviews in food science and food safety Jan 12, 2023
Microbiome science as an interdisciplinary research field has evolved rapidly over the past two decades, becoming a popular topic not only in the scientific community and among the general public, but also in the food industry due to the growing dema...
Metagenomics Humans Artificial Intelligence Metabolomics Microbiota Multiomics
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Interpretable machine learning framework reveals microbiome features of oral disease.

Microbiological research Sep 15, 2022
BACKGROUND: Although the oral microbiome plays an important role in the progression of oral diseases, the microbes closely related to these diseases remain largely uncharacterized.
Humans Machine Learning Microbiota
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The hiatus between organism and machine evolution: Contrasting mixed microbial communities with robots.

Bio Systems Sep 15, 2022
Mixed microbial communities, usually composed of various bacterial and fungal species, are fundamental in a plethora of environments, from soil to human gut and skin. Their evolution is a paradigmatic example of intertwined dynamics, where not just t...
Microbiota Humans Robotics Bacteria
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