Aarestrup, Frank M.

Identification of acquired antimicrobial resistance genes

Zankari, E., Hasman, H., Cosentino, S., Vestergaard, M., Rasmussen, S., Lund, O., Aarestrup, F. M., & Larsen, M. V. (2012) · Journal of Antimicrobial Chemotherapy

Antibiotic Resistance in BacteriaBacterial Identification and Susceptibility Testing

Cited by 4,980

ResFinder 4.0 for predictions of phenotypes from genotypes

Bortolaia, V., Kaas, R. S., Ruppe, E., Roberts, M. C., Schwarz, S., Cattoir, V., Philippon, A., Allesoe, R. L., Rebelo, A. R., Florensa, A. F., et al. (2020) · Journal of Antimicrobial Chemotherapy

Antibiotic Resistance in BacteriaBacterial Identification and Susceptibility Testing

Cited by 3,373

Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage

Hendriksen, R. S., Munk, P., Njage, P., van Bunnik, B., McNally, L., Lukjancenko, O., Röder, T., Nieuwenhuijse, D., Pedersen, S. K., Kjeldgaard, J., et al. (2019) · Nature Communications

Pharmaceutical and Antibiotic Environmental ImpactsAntibiotic Resistance in Bacteria

Cited by 1,199

Rapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data

Joensen, K. G., Tetzschner, A. M. M., Iguchi, A., Aarestrup, F. M., & Scheutz, F. (2015) · Journal of Clinical Microbiology

Escherichia coli research studiesSalmonella and Campylobacter epidemiology

Cited by 915

Detection of mobile genetic elements associated with antibiotic resistance in Salmonella enterica using a newly developed web tool: MobileElementFinder

Johansson, M. H. K., Bortolaia, V., Tansirichaiya, S., Aarestrup, F. M., Roberts, A. P., & Petersen, T. N. (2021) · Journal of Antimicrobial Chemotherapy

Salmonella and Campylobacter epidemiologyAntibiotic Resistance in Bacteria

Cited by 725

ResFinder–an open online resource for identification of antimicrobial resistance genes in next-generation sequencing data and prediction of phenotypes from genotypes

Florensa, A. F., Kaas, R. S., Clausen, P. T. L. C., Aytan-Aktug, D., & Aarestrup, F. M. (2022) · Microbial Genomics

Antibiotic Resistance in BacteriaAntibiotic Use and Resistance

Cited by 695

The role of whole genome sequencing in antimicrobial susceptibility testing of bacteria: Report from the EUCAST subcommittee

Ellington, M. J., Ekelund, O., Aarestrup, F. M., Canton, R., Doumith, M., Giske, C., Grundman, H., Hasman, H., Holden, M. T. G., Hopkins, K. L., et al. (2017) · Clinical Microbiology and Infection

Bacterial Identification and Susceptibility TestingAntibiotic Resistance in Bacteria

Cited by 603

Avoparcin used as a growth promoter is associated with the occurrence of vancomycin-resistant Enterococcus faecium on Danish poultry and pig farms

Bager, F., Madsen, M., Christensen, J., & Aarestrup, F. M. (1997) · Preventive Veterinary Medicine

Antibiotic Resistance in BacteriaAntibiotic Use and Resistance

Cited by 426

Resistance in bacteria of the food chain: Epidemiology and control strategies

Aarestrup, F. M., Wegener, H. C., & Collignon, P. (2008) · Expert Review of Anti-infective Therapy

Antibiotic Use and ResistanceAntibiotic Resistance in Bacteria

Cited by 406

International spread of an epidemic population of Salmonella enterica serotype Kentucky ST198 resistant to ciprofloxacin

Le Hello, S., Hendriksen, R. S., Doublet, B., Fisher, I., Nielsen, E. M., Whichard, J. M., Bouchrif, B., Fashae, K., Granier, S. A., Jourdan-Da Silva, N., et al. (2011) · Journal of Infectious Diseases

Salmonella and Campylobacter epidemiologyAntibiotic Resistance in Bacteria

Cited by 277

Livestock Origin for a Human Pandemic Clone of Community-Associated Methicillin-Resistant Staphylococcus aureus

Spoor, L. E., McAdam, P. R., Weinert, L. A., Rambaut, A., Hasman, H., Aarestrup, F. M., Kearns, A. M., Larsen, A. R., Skov, R. L., & Fitzgerald, J. R. (2013) · mBio

Antimicrobial Resistance in StaphylococcusAntibiotic Use and Resistance

Cited by 239

Genomic Signature of Multidrug-Resistant Salmonella enterica Serovar Typhi Isolates Related to a Massive Outbreak in Zambia between 2010 and 2012

Hendriksen, R. S., Leekitcharoenphon, P., Lukjancenko, O., Lukwesa-Musyani, C., Tambatamba, B., Mwaba, J., Kalonda, A., Nakazwe, R., Kwenda, G., Jensen, J. D., et al. (2015) · Journal of Clinical Microbiology

Salmonella and Campylobacter epidemiologyAntibiotic Resistance in Bacteria

Cited by 90

Library Preparation and Sequencing Platform Introduce Bias in Metagenomic-Based Characterizations of Microbiomes

Poulsen, C. S., Ekstrøm, C. T., Aarestrup, F. M., & Pamp, S. J. (2022) · Microbiology Spectrum

Genomics and Phylogenetic StudiesMicrobial Community Ecology and Physiology

Cited by 50

Whole-genome prediction of bacterial pathogenic capacity on novel bacteria using protein language models, with PathogenFinder2

Ferrer Florensa, A., Almagro Armenteros, J. J., Kaas, R. S., Conradsen Clausen, P. T. L., Nielsen, H., Rost, B., & Aarestrup, F. M. (2025) · Bioinformatics

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 50

Whole-genome prediction of bacterial pathogenic capacity on novel bacteria using protein language models with PathogenFinder2

Ferrer Florensa, A., Almagro Armenteros, J. J., Kaas, R. S., Clausen, P. T. L. C., Nielsen, H., Rost, B., & Aarestrup, F. M. (2026) · Bioinformatics

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 50