A Bacterial Analysis Platform: An Integrated System for Analysing Bacterial Whole Genome Sequencing Data for Clinical Diagnostics and Surveillance von Thomsen, Martin Christen Frølund, Ahrenfeldt, Johanne, Cisneros, Jose Luis Bellod, Jurtz, Vanessa, Larsen, Mette Voldby, Hasman, Henrik, Aarestrup, Frank Møller, Lund, Ole

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A sampling and metagenomic sequencing-based methodology for monitoring antimicrobial resistance in swine herds von Munk, Patrick, Andersen, Vibe Dalhoff, de Knegt, Leonardo, Jensen, Marie Stengaard, Knudsen, Berith Elkær, Lukjancenko, Oksana, Mordhorst, Hanne, Clasen, Julie, Agersø, Yvonne, Folkesson, Anders, Pamp, Sünje Johanna, Vigre, Håkan, Aarestrup, Frank Møller

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High throughput resistance profiling of Plasmodium falciparum infections based on custom dual indexing and Illumina next generation sequencing-technology von Nag, Sidsel, Dalgaard, Marlene D., Kofoed, Poul-Erik, Ursing, Johan, Crespo, Marina, Andersen, Lee O’Brien, Aarestrup, Frank Møller, Lund, Ole, Alifrangis, Michael

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In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing von CARATTOLI, Alessandra, ZANKARI, Ea, GARCIA-FERNANDEZ, Aurora, LARSEN, Mette Voldby, LUND, Ole, VILLA, Laura, AARESTRUP, Frank Møller, HASMAN, Henrik

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Host Resistance, Genomics and Population Dynamics in a Salmonella Enteritidis and Phage System von Holguín, Angela Victoria, Cárdenas, Pablo, Prada-Peñaranda, Catalina, Rabelo Leite, Laura, Buitrago, Camila, Clavijo, Viviana, Oliveira, Guilherme, Leekitcharoenphon, Pimlapas, Møller Aarestrup, Frank, Vives, Martha J

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Predicting β-lactam susceptibility from the genome of Streptococcus pneumoniae and other mitis group streptococci von Eriksen, Helle Brander, Fuursted, Kurt, Jensen, Anders, Jensen, Christian Salgård, Nielsen, Xiaohui, Christensen, Jens Jørgen, Shewmaker, Patricia, Rebelo, Ana Rita, Aarestrup, Frank Møller, Schønning, Kristian, Slotved, Hans-Christian

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SpanSeq: similarity-based sequence data splitting method for improved development and assessment of deep learning projects von Ferrer Florensa, Alfred, Almagro Armenteros, Jose Juan, Nielsen, Henrik, Aarestrup, Frank Møller, Clausen, Philip Thomas Lanken Conradsen

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Dispersion of antimicrobial resistant bacteria in pig farms and in the surrounding environment von Scicchitano, Daniel, Leuzzi, Daniela, Babbi, Giulia, Palladino, Giorgia, Turroni, Silvia, Laczny, Cédric Christian, Wilmes, Paul, Correa, Federico, Leekitcharoenphon, Pimlapas, Savojardo, Castrense, Luise, Diana, Martelli, Pierluigi, Trevisi, Paolo, Aarestrup, Frank Møller, Candela, Marco, Rampelli, Simone

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Correction: MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads von Petersen, Thomas Nordahl, Lukjancenko, Oksana, Thomsen, Martin Christen Frølund, Maddalena Sperotto, Maria, Lund, Ole, Møller Aarestrup, Frank, Sicheritz-Pontén, Thomas

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Comparative Evaluation of the Antimicrobial Activity of Different Antimicrobial Peptides against a Range of Pathogenic Bacteria von Ebbensgaard, Anna, Mordhorst, Hanne, Overgaard, Michael Toft, Nielsen, Claus Gyrup, Aarestrup, Frank Møller, Hansen, Egon Bech

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MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads von Petersen, Thomas Nordahl, Lukjancenko, Oksana, Thomsen, Martin Christen Frølund, Maddalena Sperotto, Maria, Lund, Ole, Møller Aarestrup, Frank, Sicheritz-Pontén, Thomas

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Danish Whole-Genome-Sequenced Candida albicans and Candida glabrata Samples Fit into Globally Prevalent Clades von Szarvas, Judit, Rebelo, Ana Rita, Bortolaia, Valeria, Leekitcharoenphon, Pimlapas, Schrøder Hansen, Dennis, Nielsen, Hans Linde, Nørskov-Lauritsen, Niels, Kemp, Michael, Røder, Bent Løwe, Frimodt-Møller, Niels, Søndergaard, Turid Snekloth, Coia, John Eugenio, Østergaard, Claus, Westh, Henrik, Aarestrup, Frank Møller

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PathogenFinder--distinguishing friend from foe using bacterial whole genome sequence data von Cosentino, Salvatore, Voldby Larsen, Mette, Møller Aarestrup, Frank, Lund, Ole

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Bacterial whole genome-based phylogeny: construction of a new benchmarking dataset and assessment of some existing methods von Ahrenfeldt, Johanne, Skaarup, Carina, Hasman, Henrik, Pedersen, Anders Gorm, Aarestrup, Frank Møller, Lund, Ole

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Public Health Surveillance using Decentralized Technologies von Bellod Cisneros, Jose Luis, Møller Aarestrup, Frank, Lund, Ole

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One Day in Denmark: Nationwide point-prevalence survey of human bacterial isolates and comparison of classical and whole-genome sequence-based species identification methods von Rebelo, Ana Rita, Ibfelt, Tobias, Bortolaia, Valeria, Leekitcharoenphon, Pimlapas, Hansen, Dennis Schrøder, Nielsen, Hans Linde, Ellermann-Eriksen, Svend, Kemp, Michael, Røder, Bent Løwe, Frimodt-Møller, Niels, Søndergaard, Turid Snekloth, Coia, John Eugenio, Østergaard, Claus, Pedersen, Michael, Westh, Henrik, Aarestrup, Frank Møller

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Dissection of the antimicrobial and hemolytic activity of Cap18: Generation of Cap18 derivatives with enhanced specificity von Ebbensgaard, Anna, Mordhorst, Hanne, Overgaard, Michael Toft, Aarestrup, Frank Møller, Hansen, Egon Bech

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Expansion of a Plasmid Classification System for Gram-Positive Bacteria and Determination of the Diversity of Plasmids in Staphylococcus aureus Strains of Human, Animal, and Food O... von LOZANO, Carmen, GARCIA-MIGURA, Lourdes, ASPIROZ, Carmen, ZARAZAGA, Myriam, TORRES, Carmen, MOLLER AARESTRUP, Frank

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Diversity and evolution of blaZ from Staphylococcus aureus and coagulase-negative staphylococci von Olsen, John Elmerdahl, Christensen, Henrik, Aarestrup, Frank Møller

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Effect of Abolishment of the Use of Antimicrobial Agents for Growth Promotion on Occurrence of Antimicrobial Resistance in Fecal Enterococci from Food Animals in Denmark von AARESTRUP, Frank Miller, SEYFARTH, Anne Mette, EMBORG, Hanne-Dorthe, PEDERSEN, Karl, HENDRIKSEN, René S, BAGER, Flemming

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