PLSDB: advancing a comprehensive database of bacterial plasmids

Genomics and Virulence of Klebsiella pneumoniae Kpnu95 ST1412 Harboring a Novel Incf Plasmid Encoding Blactx-M-15 and Qnrs1 Causing Community Urinary Tract Infection

(2021) Ayala Gancz et al.   Microorganisms

PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

(2021) Léa Pradier et al.   BMC BIOINFORMATICS

SCAPP: an algorithm for improved plasmid assembly in metagenomes

(2021) David Pellow et al.   Microbiome

Towards the sustainable discovery and development of new antibiotics

(2021) Marcus Miethke et al.   Nature Reviews Chemistry

Carbapenem Resistance-Encoding and Virulence-Encoding Conjugative Plasmids in Klebsiella pneumoniae

(2020) Xuemei Yang et al.   TRENDS IN MICROBIOLOGY

Rapid identification of pathogens, antibiotic resistance genes and plasmids in blood cultures by nanopore sequencing

(2020) Arne M. Taxt et al.   Scientific Reports

PlasClass improves plasmid sequence classification

(2020) David Pellow et al.   PLoS Computational Biology

Analysis of COMPASS, a New Comprehensive Plasmid Database Revealed Prevalence of Multireplicon and Extensive Diversity of IncF Plasmids

(2020) Pierre-Emmanuel Douarre et al.   Frontiers in Microbiology

ResFinder 4.0 for predictions of phenotypes from genotypes

(2020) Valeria Bortolaia et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

The Role of Integrative and Conjugative Elements in Antibiotic Resistance Evolution

(2020) João Botelho et al.   TRENDS IN MICROBIOLOGY

Environmental dissemination of carbapenemase-producing Enterobacteriaceae in rivers in Switzerland

(2020) Stephanie Bleichenbacher et al.   ENVIRONMENTAL POLLUTION

mMGE: a database for human metagenomic extrachromosomal mobile genetic elements

(2020) Senying Lai et al.   NUCLEIC ACIDS RESEARCH

Characterization of methicillin-resistant Staphylococcus aureus through genomics approach

(2020) Romen Singh Naorem et al.   3 Biotech

Tracking of Antibiotic Resistance Transfer and Rapid Plasmid Evolution in a Hospital Setting by Nanopore Sequencing

(2020) Silke Peter et al.   mSphere

The variable quality of metadata about biological samples used in biomedical experiments

(2019) Rafael S. Gonçalves et al.   Scientific Data

PlasFlow: predicting plasmid sequences in metagenomic data using genome signatures

(2018) Pawel S Krawczyk et al.   NUCLEIC ACIDS RESEARCH

Prevalence of blaZ Gene and Performance of Phenotypic Tests to Detect Penicillinase in Staphylococcus aureus Isolates from Japan

(2018) Yoshiko Takayama et al.   Annals of Laboratory Medicine

Methicillin-resistant Staphylococcus aureus

(2018) Andie S. Lee et al.   Nature Reviews Disease Primers

Horizontal transfer of antibiotic resistance genes in clinical environments

(2018) Nicole A. Lerminiaux et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Human Disease Ontology 2018 update: classification, content and workflow expansion

(2018) Lynn M Schriml et al.   NUCLEIC ACIDS RESEARCH

Eleven quick tips to build a usable REST API for life sciences

(2018) Aleksandra Tarkowska et al.   PLoS Computational Biology

Ordering the mob: Insights into replicon and MOB typing schemes from analysis of a curated dataset of publicly available plasmids

(2017) Alex Orlek et al.   PLASMID

Kablammo: an interactive, web-based BLAST results visualizer

(2014) J. A. Wintersinger et al.   BIOINFORMATICS

ARG-ANNOT, a New Bioinformatic Tool To Discover Antibiotic Resistance Genes in Bacterial Genomes

(2013) Sushim Kumar Gupta et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

BioProject and BioSample databases at NCBI: facilitating capture and organization of metadata

(2011) T. Barrett et al.   NUCLEIC ACIDS RESEARCH

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS