Applications of machine learning to the problem of antimicrobial resistance: an emerging model for translational research

MN Anahtar, JH Yang, S Kanjilal - Journal of clinical microbiology, 2021 - Am Soc Microbiol
Antimicrobial resistance (AMR) remains one of the most challenging phenomena of modern
medicine. Machine learning (ML) is a subfield of artificial intelligence that focuses on the …

Artificial intelligence for antimicrobial resistance prediction: challenges and opportunities towards practical implementation

T Ali, S Ahmed, M Aslam - Antibiotics, 2023 - mdpi.com
Antimicrobial resistance (AMR) is emerging as a potential threat to many lives worldwide. It
is very important to understand and apply effective strategies to counter the impact of AMR …

Prediction of antibiotic resistance in Escherichia coli from large-scale pan-genome data

D Moradigaravand, M Palm, A Farewell… - PLoS computational …, 2018 - journals.plos.org
The emergence of microbial antibiotic resistance is a global health threat. In clinical settings,
the key to controlling spread of resistant strains is accurate and rapid detection. As …

Integrating whole-genome sequencing data into quantitative risk assessment of foodborne antimicrobial resistance: a review of opportunities and challenges

L Collineau, P Boerlin, CA Carson… - Frontiers in …, 2019 - frontiersin.org
Whole-genome sequencing (WGS) will soon replace traditional phenotypic methods for
routine testing of foodborne antimicrobial resistance (AMR). WGS is expected to improve …

Forest and trees: exploring bacterial virulence with genome-wide association studies and machine learning

JP Allen, E Snitkin, NB Pincus, AR Hauser - Trends in microbiology, 2021 - cell.com
The advent of inexpensive and rapid sequencing technologies has allowed bacterial whole-
genome sequences to be generated at an unprecedented pace. This wealth of information …

Whole-genome sequencing and gene sharing network analysis powered by machine learning identifies antibiotic resistance sharing between animals, humans and …

Z Peng, A Maciel-Guerra, M Baker… - PLoS computational …, 2022 - journals.plos.org
Anthropogenic environments such as those created by intensive farming of livestock, have
been proposed to provide ideal selection pressure for the emergence of antimicrobial …

Current affairs of microbial genome-wide association studies: approaches, bottlenecks and analytical pitfalls

JE San, S Baichoo, A Kanzi, Y Moosa… - Frontiers in …, 2020 - frontiersin.org
Microbial genome-wide association studies (mGWAS) are a new and exciting research field
that is adapting human GWAS methods to understand how variations in microbial genomes …

Convergence of resistance and evolutionary responses in Escherichia coli and Salmonella enterica co-inhabiting chicken farms in China

M Baker, X Zhang, A Maciel-Guerra… - Nature …, 2024 - nature.com
Sharing of genetic elements among different pathogens and commensals inhabiting same
hosts and environments has significant implications for antimicrobial resistance (AMR) …

PanKmer: k-mer-based and reference-free pangenome analysis

AJ Aylward, S Petrus, A Mamerto, NT Hartwick… - …, 2023 - academic.oup.com
Pangenomes are replacing single reference genomes as the definitive representation of
DNA sequence within a species or clade. Pangenome analysis predominantly leverages …

Potential use of microbial community genomes in various dimensions of agriculture productivity and its management: a review

MA Iquebal, J Jagannadham, S Jaiswal… - Frontiers in …, 2022 - frontiersin.org
Agricultural productivity is highly influenced by its associated microbial community. With
advancements in omics technology, metagenomics is known to play a vital role in microbial …