Conference Abstracts & Presentations
2023 London Calling | Old Billingsgate, London, UK
Abstract:
Full-length Nanopore 16S amplicon analysis in a standardised pipeline
Fredrik Dyrkell, Dimitrios Arnellos, Oskar Aspelin.
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2023 ECCMID | Copenhagen, Denmark
Poster number: P1799
Using Nanopore sequencing data for bacterial core genome MLST analysis
Oscar Aspelin, Fredrik Dyrkell.
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Poster number: P1806
Performance evaluation of taxonomic classification between different Kraken databases
Fredrik Dyrkell, Dimitrios Arnellos, Oskar Andersson.
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Poster number: P1769
Validation of phylogenetic SNP analysis for Candida auris
Fredrik Dyrkell, Susanne Staaf.
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Poster number: P1851
Optimised long read 16S metagenomics for clinical diagnostics
A. Fagerström.
Abstract number: 02653
Defining a national outbreak surveillance approach for methicillin-resistant Staphylococcus aureus within Genomic Medicine Sweden
E. Hallbäck et al.
AFLP and nanopore whole-genome sequencing streamlined initial local outbreak investigation during a countrywide Pseudomonas aeruginosa hospital outbreak in Norway
a. Blomfeldt et al.
2022 Infektionsveckan & Mikrobiologiskt Vårmöte | Stockholm, Sweden
Abstract: MI-P203
Användande av Oxford Nanopore-data för bakteriell core SNP-analys
Oscar Aspelin, Fredrik Dyrkell.
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2022 ECCMID | Lisbon, Portugal
Abstract: 00996
Fast and accurate pathogen identification with NGS 16S amplicon analysis in the cloud.
Dimitrios Arnellos, Martin Vondracek, Fredrik Dyrkell.
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Abstract: 00978
Using Nanopore sequencing data for bacterial core SNP analysis.
Oscar Aspelin, Fredrik Dyrkell.
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2021 ECCMID | online congress
Oral:
Vancomycin-resistant Enterococcus (VRE) RapidShare study Europe: evaluating cloud based whole genome sequencing outbreak analysis between five European hospitals.
Fredrik Dyrkell (Speaker), H Fang, C Giske, M Kemp, H Seth-Smith, A Egli, J Top, R Willems, P Mölling, M Sundqvist.
Abstract:
Evaluation of the accuracy of bioinformatics tools for genotypic species identification of clinical Klebsiella spp. Isolates.
Andreas Tilevik (Poster Presenter), P Saxenborn (Abstract Author), Magnus Fagerlind (Abstract Author), Fredrik Dyrkell (Abstract Author), Anna-Karin Pernestig (Abstract Author), Helena Enroth (Abstract Author).
2020 ECCMID | online congress
Abstract 383:
Neural networks for prediction of minimum inhibitory concentration.
E.Carlsson et al.
Abstract 387:
A k-mer based approach for MLST and cgMLST analysis of nanopore sequenced Staphylococcus aureus.
O. Aspelin et al.
Abstract 908:
Using machine learning for improving MLST analysis of nanopore sequenced bacteria.
O. Aspelin
Abstract 5025:
Epidemiological typing of Neisseria gonorrhoeae with whole genome sequencing: a vital supplement in transmission surveillance.
K. Bhattarai et al.
Abstract 6386:
Whole-genome sequences analyses by a new easy-to-use software solution confirm a neonatal ward outbreak of MRSA CC22 being related to strains in the neighboring region.
M. Jensen et al.
Abstract 6469:
In-host evolution of methicillin-resistant Staphylococcus aureus within individual carrier using core genome multi-locus sequence typing and single-nucleotide polymorphism analysis.
A. Lagos et al.
2020 ID week
Castanheira, M. Deshpande, L. Davis, A. Dyrkell, F. Arnellos, D. (2020, October)
Analysis of a Worldwide Collection of Klebsiella pneumoniae CC258 with Reference to Carbapenemase Production Using the 1928 Core Genome (cg) Multilocus Sequence Type (MLST) Reveals Endemicity and Global Dissemination of Clones.
2019 ID week
Deshpande, L. M., Davis, A. P., Dyrkell, F. Arnellos, D., Castanheira, M. (2019, October).
Epidemiologic Analysis of a Worldwide Collection of Escherichia coli ST131 Using the 1928D Core Genome Multilocus Sequence Typing Reveals Country Specific and Globally Disseminated Clades.
ID Week. Washington, DC, USA.
2019 ECCMID | Amsterdam, The Netherlands
Giske, C. G., Dyrkell, F., Arnellos, D., Vestberg, N., Hermansson Panna, S., Fröding, I., … Fang, H. (2019).
Epidemiological typing of methicillin-resistant Staphylococcus argenteus in Stockholm, Sweden
Deshpande, L. M., David, A. P., Dyrkell, F. Arnellos, D., Mendes, R. E., (2019, April).
Evaluation of the Staphylococcus aureus Analysis “1928D” Pipeline to Determine the Epidemiological Threshold Using Whole Genome Sequence Data.
2018 ECCMID | Madrid, Spain
O1088:
Shotgun metagenomics and typing of bacterial DNA in 5 mL whole blood from patients with suspected bloodstream infection.
P. Mölling et al.