Plasmer: an accurate and sensitive bacterial plasmid prediction Tool Based on Machine Learning of Shared k-mers and genomic features

Q Zhu, S Gao, B Xiao, Z He, S Hu - Microbiology Spectrum, 2023 - Am Soc Microbiol
Identification of plasmids in bacterial genomes is critical for many factors, including
horizontal gene transfer, antibiotic resistance genes, host-microbe interactions, cloning …

Accurate binning of metagenomic contigs using composition, coverage, and assembly graphs

V Mallawaarachchi, Y Lin - Journal of Computational Biology, 2022 - liebertpub.com
Metagenomics enables the recovery of various genetic materials from different species, thus
providing valuable insights into microbial communities. Metagenomic binning group …

BusyBee Web: towards comprehensive and differential composition-based metagenomic binning

GP Schmartz, P Hirsch, J Amand… - Nucleic Acids …, 2022 - academic.oup.com
Despite recent methodology and reference database improvements for taxonomic profiling
tools, metagenomic assembly and genomic binning remain important pillars of metagenomic …

MetaGraph: Plasmid/Chromosome Classification Enhancement Using Graph Neural Networks

S Alahakoon, G Dassanayake… - 2022 Moratuwa …, 2022 - ieeexplore.ieee.org
Chromosomes and plasmids are the main sites of genetic information in microorganisms.
Separately identifying plasmids and chromosomes is essential for further metagenomic …

The role of mobile genetic elements for the transmission of antimicrobial resistance worldwide

MHK Johansson - 2023 - orbit.dtu.dk
The increasing prevalence of antimicrobial-resistant (AMR) bacteria is a major threat to
global public health. It undermines the treatment of infectious diseases, thus leading to …

Models and Algorithms for Metagenomics Analysis and Plasmid Classification

A Wickramarachchi - 2022 - search.proquest.com
Metagenomics studies have provided key insights into the composition and structure of
microbial communities found in different environments. Among the techniques used to …