AIMC Topic: Drug Resistance, Microbial
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HMD-ARG: hierarchical multi-task deep learning for annotating antibiotic resistance genes.
Microbiome
Feb 8, 2021
BACKGROUND: The spread of antibiotic resistance has become one of the most urgent threats to global health, which is estimated to cause 700,000 deaths each year globally. Its surrogates, antibiotic resistance genes (ARGs), are highly transmittable be...
Temporal variation and sharing of antibiotic resistance genes between water and wild fish gut in a peri-urban river.
Journal of environmental sciences (China)
Oct 24, 2020
Antibiotic resistance genes (ARGs) as emergence contaminations have spread widely in the water environment. Wild fish may be recipients and communicators of ARGs in the water environment, however, the distribution and transmission of ARGs in the wild...
Feature selection based multivariate time series forecasting: An application to antibiotic resistance outbreaks prediction.
Artificial intelligence in medicine
Feb 19, 2020
Antimicrobial resistance has become one of the most important health problems and global action plans have been proposed globally. Prevention plays a key role in these actions plan and, in this context, we propose the use of Artificial Intelligence, ...
VAMPr: VAriant Mapping and Prediction of antibiotic resistance via explainable features and machine learning.
PLoS computational biology
Jan 13, 2020
Antimicrobial resistance (AMR) is an increasing threat to public health. Current methods of determining AMR rely on inefficient phenotypic approaches, and there remains incomplete understanding of AMR mechanisms for many pathogen-antimicrobial combin...
Fate of pirlimycin and antibiotic resistance genes in dairy manure slurries in response to temperature and pH adjustment.
The Science of the total environment
Dec 26, 2019
Quantifying the fate of antibiotics and antibiotic resistance genes (ARGs) in response to physicochemical factors during storage of manure slurries will aid in efforts to reduce the spread of resistance when manure is land-applied. The objectives of ...
Exploiting open source 3D printer architecture for laboratory robotics to automate high-throughput time-lapse imaging for analytical microbiology.
PloS one
Nov 19, 2019
Growth in open-source hardware designs combined with the low-cost of high performance optoelectronic and robotics components has supported a resurgence of in-house custom lab equipment development. We describe a low cost (below $700), open-source, fu...
Molecular mechanisms of antibiotic co-resistance among carbapenem resistant Acinetobacter baumannii.
Journal of infection in developing countries
Oct 31, 2019
INTRODUCTION: The spread of carbapenem-resistant Acinetobacter baumannii (CRAB) is difficult to control especially in the hospitals due to the successful mobilization and evolution of the genetic elements harboring the resistant determinants. The stu...
Antibiotic resistance and metabolic profiles as functional biomarkers that accurately predict the geographic origin of city metagenomics samples.
Biology direct
Aug 20, 2019
BACKGROUND: The availability of hundreds of city microbiome profiles allows the development of increasingly accurate predictors of the origin of a sample based on its microbiota composition. Typical microbiome studies involve the analysis of bacteria...
Hierarchical Hidden Markov models enable accurate and diverse detection of antimicrobial resistance sequences.
Communications biology
Aug 6, 2019
The characterization of antimicrobial resistance genes from high-throughput sequencing data has become foundational in public health research and regulation. This requires mapping sequence reads to databases of known antimicrobial resistance genes to...
Tracking antibiotic resistance gene pollution from different sources using machine-learning classification.
Microbiome
May 24, 2018
BACKGROUND: Antimicrobial resistance (AMR) has been a worldwide public health concern. Current widespread AMR pollution has posed a big challenge in accurately disentangling source-sink relationship, which has been further confounded by point and non...
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