TY - JOUR
T1 - Clinical bioinformatics for microbial genomics and metagenomics
T2 - an ESCMID Postgraduate Technical Workshop
AU - ESGMD study group
AU - Greub, Gilbert
AU - Palagi, Patricia M
AU - Dylus, David
AU - Egli, Adrian
AU - Pillonel, Trestan
AU - Rossen, John W A
AU - Seth-Smith, Helena M B
AU - Lebrand, Aitana
N1 - Copyright © 2020 The Author(s). Published by Elsevier Masson SAS.. All rights reserved.
PY - 2020/11/1
Y1 - 2020/11/1
N2 - The European Society of Clinical Microbiology and Infectious Diseases (ESCMID) workshop on genomics and metagenomics was held in Lausanne from 9th to 12th September 2019. As many as 68 participants from 20 countries from all 5 continents participated to this postgraduate technical workshop. During 4 days, the participants shared their time between conferences on various topics related to the implementation of genomics and metagenomics in a clinical diagnostic laboratory. These included talks from the clinics and talks from bioinformatic experts. A significant time was also dedicated to practicals covering various aspects of the data analysis of NGS sequences (quality check, annotation of virulence and antibiotic resistance genes, taxonomic assignment of amplicons, strain typing, …). This ESCMID meeting co-organized by A Lebrand and G Greub, with the help of the European Study Group for Genomics ad Molecular Diagnostics (ESGMD) provided a unique opportunity to exchange knowledge and ideas on the most recent bioinformatic approaches, as well as how to report such NGS results in diagnostic laboratories. This meeting report summarizes the key messages of this meeting.
AB - The European Society of Clinical Microbiology and Infectious Diseases (ESCMID) workshop on genomics and metagenomics was held in Lausanne from 9th to 12th September 2019. As many as 68 participants from 20 countries from all 5 continents participated to this postgraduate technical workshop. During 4 days, the participants shared their time between conferences on various topics related to the implementation of genomics and metagenomics in a clinical diagnostic laboratory. These included talks from the clinics and talks from bioinformatic experts. A significant time was also dedicated to practicals covering various aspects of the data analysis of NGS sequences (quality check, annotation of virulence and antibiotic resistance genes, taxonomic assignment of amplicons, strain typing, …). This ESCMID meeting co-organized by A Lebrand and G Greub, with the help of the European Study Group for Genomics ad Molecular Diagnostics (ESGMD) provided a unique opportunity to exchange knowledge and ideas on the most recent bioinformatic approaches, as well as how to report such NGS results in diagnostic laboratories. This meeting report summarizes the key messages of this meeting.
U2 - 10.1016/j.micinf.2020.07.008
DO - 10.1016/j.micinf.2020.07.008
M3 - Article
C2 - 32841729
SN - 1286-4579
VL - 22
SP - 626
EP - 634
JO - Microbes and infection
JF - Microbes and infection
IS - 10
ER -