PLASMe: a tool to identify PLASMid contigs from short-read assemblies using transformer
Plasmids are mobile genetic elements that carry important accessory genes. Cataloging
plasmids is a fundamental step to elucidate their roles in promoting horizontal gene transfer …
plasmids is a fundamental step to elucidate their roles in promoting horizontal gene transfer …
[HTML][HTML] Diverse plasmid systems and their ecology across human gut metagenomes revealed by PlasX and MobMess
Plasmids alter microbial evolution and lifestyles by mobilizing genes that often confer fitness
in changing environments across clades. Yet our ecological and evolutionary understanding …
in changing environments across clades. Yet our ecological and evolutionary understanding …
Artificial intelligence tools for the identification of antibiotic resistance genes
I Olatunji, DKR Bardaji, RR Miranda… - Frontiers in …, 2024 - frontiersin.org
The fight against bacterial antibiotic resistance must be given critical attention to avert the
current and emerging crisis of treating bacterial infections due to the inefficacy of clinically …
current and emerging crisis of treating bacterial infections due to the inefficacy of clinically …
[HTML][HTML] A cryptic plasmid is among the most numerous genetic elements in the human gut
EC Fogarty, MS Schechter, K Lolans, ML Sheahan… - Cell, 2024 - cell.com
Plasmids are extrachromosomal genetic elements that often encode fitness-enhancing
features. However, many bacteria carry" cryptic" plasmids that do not confer clear beneficial …
features. However, many bacteria carry" cryptic" plasmids that do not confer clear beneficial …
Accurate identification of bacteriophages from metagenomic data using Transformer
Motivation Bacteriophages are viruses infecting bacteria. Being key players in microbial
communities, they can regulate the composition/function of microbiome by infecting their …
communities, they can regulate the composition/function of microbiome by infecting their …
DCiPatho: deep cross-fusion networks for genome scale identification of pathogens
Pathogen detection from biological and environmental samples is important for global
disease control. Despite advances in pathogen detection using deep learning, current …
disease control. Despite advances in pathogen detection using deep learning, current …
[HTML][HTML] Bacteria can maintain rRNA operons solely on plasmids for hundreds of millions of years
M Anda, S Yamanouchi, S Cosentino… - Nature …, 2023 - nature.com
It is generally assumed that all bacteria must have at least one rRNA operon (rrn operon) on
the chromosome, but some strains of the genera Aureimonas and Oecophyllibacter carry …
the chromosome, but some strains of the genera Aureimonas and Oecophyllibacter carry …
Machine learning-enabled prediction of antimicrobial resistance in foodborne pathogens
ABSTRACT The World Health Organization (WHO) has identified antimicrobial resistance
(AMR) as one of the top three global dangers to public health. One of the most vital factors …
(AMR) as one of the top three global dangers to public health. One of the most vital factors …
Conditional Wasserstein generative adversarial networks applied to acoustic metamaterial design
P Lai, F Amirkulova, P Gerstoft - The Journal of the Acoustical Society …, 2021 - pubs.aip.org
This work presents a method for the reduction of the total scattering cross section (TSCS) for
a planar configuration of cylinders by means of generative modeling and deep learning …
a planar configuration of cylinders by means of generative modeling and deep learning …
Adaptive sequencing using nanopores and deep learning of mitochondrial DNA
A Danilevsky, AL Polsky… - Briefings in …, 2022 - academic.oup.com
Nanopore sequencing is an emerging technology that reads DNA by utilizing a unique
method of detecting nucleic acid sequences and identifies the various chemical …
method of detecting nucleic acid sequences and identifies the various chemical …