Previously selected papers

Monkeypox clade IIb in France in 2023-2024

Prediction of strain level phage-host interactions across the Escherichia genus using only genomic information

Genomic evidence of Escherichia coli gut population diversity translocation in leukemia patients

Effectiveness of nirsevimab against RSV-bronchiolitis in paediatric ambulatory care: a test-negative case-control study

Nirsevimab and Hospitalization for RSV Bronchiolitis

Optimization of Mycobacterium tuberculosis DNA processing prior to whole genome sequencing

Treatment of positive catheter tip culture without bloodstream infections in critically ill patients. A case-cohort study from the OUTCOMEREA network

Implementation of the WHO Tricycle protocol for surveillance of extended-spectrum β-lactamase producing Escherichia coli in humans, chickens, and the environment in Madagascar: a prospective genomic epidemiology study

Model-based bioequivalence approach for sparse pharmacokinetic bioequivalence studies: Model selection or model averaging?

Cooperative growth in microbial communities is a driver of multistability

Cost-effectiveness of drug consumption rooms in France: a modelling study

Doxycycline prophylaxis and meningococcal group B vaccine to prevent bacterial sexually transmitted infections in France (ANRS 174 DOXYVAC): a multicentre, open-label, randomised trial with a 2 × 2 factorial design

Clinical characteristics and outcomes of respiratory syncytial virus-associated ARF in immunocompetent patients: A seven-year experience at a tertiary hospital in France

Appropriateness of intended antibiotic prescribing using clinical case vignettes in primary care, and related factors

Variability in cell division among anatomical sites shapes Escherichia coli antibiotic survival in a urinary tract infection mouse model

Pharmaco-virological Outcomes and Genotypic Resistance Profiles Among Children and Adolescents Receiving a Dolutegravir-Based Regimen in Togo

Uncertainty Computation at Finite Distance in Nonlinear Mixed Effects Models-a New Method Based on Metropolis-Hastings Algorithm

Perturbation and resilience of the gut microbiome up to 3 months after β-lactams exposure in healthy volunteers suggest an important role of microbial β-lactamases

Inter-phylum circulation of a beta-lactamase-encoding gene: a rare but observable event

Extending the code in the open-source saemix package to fit joint models of longitudinal and time-to-event data

Evolution of respiratory syncytial virus burden in young children following the COVID-19 pandemic: influence of concomitant changes in testing practices

The mechanism of ceftazidime and cefiderocol hydrolysis by D179Y variants of KPC carbapenemases is similar and involves the formation of a long-lived covalent intermediate

Clinical and Bacteriological Specificities of Escherichia coli Bloodstream Infections From Biliary Portal of Entries

Single-drug versus combination antimicrobial therapy in critically ill patients with hospital-acquired pneumonia and ventilator-associated pneumonia due to Gram-negative pathogens: a multicenter retrospective cohort study

Early administration of tecovirimat shortens the time to mpox clearance in a model of human infection

Age-Specific Resurgence in Invasive Pneumococcal Disease Incidence in the COVID-19 Pandemic Era and Its Association With Respiratory Virus and Pneumococcal Carriage Dynamics: A Time-Series Analysis

Towards the reconstruction of a global TB history using a new pipeline "TB-Annotator"

Higher Levels of SARS-CoV-2 Genetic Variation in Immunocompromised Patients: A Retrospective Case-Control Study

Mycobacterium tuberculosis complex drug-resistance, phylogenetics, and evolution in Nigeria: Comparison with Ghana and Cameroon

Deep mutational scanning reveals the molecular determinants of RNA polymerase-mediated adaptation and tradeoffs

Invasive Bacterial Infections in Children With Sickle Cell Disease: 2014-2019

Association between SARS-CoV-2 viral kinetics and clinical score evolution in hospitalized patients

Dissemination of IncI plasmid encoding bla CTX-M-1 is not hampered by its fitness cost in the pig's gut

Which severe COVID-19 patients could benefit from high dose dexamethasone? A Bayesian post-hoc reanalysis of the COVIDICUS randomized clinical trial

Prevalence and associated factors of antibiotic exposure during pregnancy in a large French population-based study during the 2010-19 period

Impact of variants of concern on SARS-CoV-2 viral dynamics in non-human primates

Modeling the kinetics of the neutralizing antibody response against SARS-CoV-2 variants after several administrations of Bnt162b2

The bacterial genetic determinants of Escherichia coli capacity to cause bloodstream infections in humans

Comparison between targeted and vaccinated populations during the mpox vaccination campaign in France

Within-Host Dynamics and Duration of Colonization of Travel-Acquired Multidrug-Resistant Enterobacterales in Untreated Individuals

Epistatic interactions between the high pathogenicity island and other iron uptake systems shape Escherichia coli extra-intestinal virulence

Pharmacokinetic interaction between rifampicin and clindamycin in staphylococcal osteoarticular infections

Risk of infections in intravascular catheters in situ for more than 10 days: a post hoc analysis of randomized controlled trials

Time to intestinal clearance of carbapenemase-producing Enterobacterales in hospital patients: a longitudinal retrospective observational cohort study

ResFinderFG v2.0: a database of antibiotic resistance genes obtained by functional metagenomics

Evaluation of model-based bioequivalence approach for single sample pharmacokinetic studies

Phylodynamics of SARS-CoV-2 in France, Europe, and the world in 2020

Performances of bioinformatics tools for the analysis of sequencing data of Mycobacterium tuberculosis complex strains

Antimicrobial for 7 or 14 Days for Febrile Urinary Tract Infection in Men: A Multicenter Noninferiority Double-Blind, Placebo-Controlled, Randomized Clinical Trial.

Agreement of respiratory viruses' detection between nasopharyngeal swab and bronchoalveolar lavage in adults admitted for pneumonia: a retrospective study

Same-day initiation of bictegravir/emtricitabine/tenofovir alafenamide: Week 48 results of the FAST study-IMEA 055

Modelling the potential effectiveness of hepatitis C screening and treatment strategies during pregnancy in Egypt and Ukraine

Synergistic Activity of Pep16, a Promising New Antibacterial Pseudopeptide against Multidrug-Resistant Organisms, in Combination with Colistin against Multidrug-Resistant Escherichia coli, In Vitro and in a Murine Peritonitis Model

Investigating the Diversity of Tuberculosis Spoligotypes with Dimensionality Reduction and Graph Theory

Cost-effectiveness of hepatitis C virus test-and-treat and risk reduction strategies among men who have sex with men living with HIV in France

A Clinical Study Provides the First Direct Evidence That Interindividual Variations in Fecal β-Lactamase Activity Affect the Gut Mycobiota Dynamics in Response to β-Lactam Antibiotics

Acquisition of Enterobacterales carrying the colistin resistance gene mcr following travel to the tropics

Automated HPLC-MS/MS assay for the simultaneous determination of ten plasma antibiotic concentrations

Oropharyngeal and intestinal concentrations of opportunistic pathogens are independently associated with death of SARS-CoV-2 critically ill adults

Prevalence of post-acute coronavirus disease 2019 symptoms twelve months after hospitalization in participants retained in follow-up: analyses stratified by gender from a large prospective cohort

Epidemiological investigation of Pseudomonas aeruginosa isolates including multidrug-resistant serogroup O12 isolates, by use of a rapid and simplified multiple-locus variable-number of tandem repeats analysis and whole genome sequencing

Detection of Klebsiella pneumoniae isolates coproducing the plasmid-encoded 16S rRNA methyltransferase RmtF and carbapenemase in Paris, France

Antiviral efficacy of favipiravir against Zika and SARS-CoV-2 viruses in non-human primates

Update of Perinatal Human Immunodeficiency Virus Type 1 Transmission in France: Zero Transmission for 5482 Mothers on Continuous Antiretroviral Therapy From Conception and With Undetectable Viral Load at Delivery

Clinical characteristics of ambulatory and hospitalized patients with monkeypox virus infection: an observational cohort study

Klebsiella pneumoniae Carbapenemase Variants Resistant to Ceftazidime-Avibactam: an Evolutionary Overview

Detection of Monkeypox Virus in Anorectal Swabs From Asymptomatic Men Who Have Sex With Men in a Sexually Transmitted Infection Screening Program in Paris, France

The Population Genomics of Increased Virulence and Antibiotic Resistance in Human Commensal Escherichia coli over 30 Years in France

Use of Whole-Genome Sequencing to Explore Mycobacterium tuberculosis Complex Circulating in a Hotspot Department in France

Deciphering polymorphism in 61,157 Escherichia coli genomes via epistatic sequence landscapes

Extended prone positioning duration for COVID-19-related ARDS: benefits and detriments

Dissemination of carbapenemase-producing Enterobacterales in the community of Rawalpindi, Pakistan.

MiniBioReactor Array (MBRA) in vitro gut model: a reliable system to study microbiota-dependent response to antibiotic treatment

SARS-CoV-2 exposures of healthcare workers from primary care, long-term care facilities and hospitals: a nationwide matched case-control study

Evaluation of the inoculum effect of new antibiotics against carbapenem-resistant enterobacterales

Early chest CT-scan in emergency patients affected by community-acquired pneumonia is associated with improved diagnosis consistency

Increased risk of severe COVID-19 in hospitalized patients with SARS-CoV-2 Alpha variant infection: a multicentre matched cohort study

Final results of the DisCoVeRy trial of remdesivir for patients admitted to hospital with COVID-19

Escherichia coli community-acquired meningitis in adults: a case series of 29 patients in France

Systematic and quantitative view of the antiviral arsenal of prokaryotes

Contribution of Clinical Metagenomics to the Diagnosis of Bone and Joint Infections

TisB Protein Protects Escherichia coli Cells Suffering Massive DNA Damage from Environmental Toxic Compounds

The interplay between anticancer challenges and the microbial communities from the gut

Antimicrobial stewardship in high-risk febrile neutropenia patients

Genome wide association study of Escherichia coli bloodstream infection isolates identifies genetic determinants for the portal of entry but not fatal outcome

Large retrospective study analysing predictive factors of primary treatment failure, recurrence and death in pyogenic liver abscesses

Simultaneous Hospital Outbreaks of New Delhi Metallo-β-Lactamase-Producing Enterobacterales Unraveled Using Whole-Genome Sequencing.

Poor oral health and hygiene habits in patients with infective endocarditis and previously identified predisposing cardiac condition: A prospective cohort study

Effect of remdesivir on viral dynamics in COVID-19 hospitalized patients: a modelling analysis of the randomized, controlled, open-label DisCoVeRy trial

Genomic and antimicrobial resistance analyses of Neisseria gonorrhoeae isolates, Burkina Faso, 2018-2019

Reduced Chlorhexidine Susceptibility Is Associated with Tetracycline Resistance tet Genes in Clinical Isolates of Escherichia coli

Significant variation in the faecal relative abundance of carbapenemase-producing Enterobacteriaceae of colonised patients during hospitalisation: a preliminary study

Bictegravir pharmacokinetics in a late-presenting HIV-1-infected pregnant woman: a case report

Prescribers' experience and opinions on antimicrobial stewardship programmes in hospitals: a French nationwide survey