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Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting.

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Title: Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting.
Authors: de Vries JJC; Clinical Microbiological Laboratory, department of Medical Microbiology, Leiden University Medical Center, Leiden, the Netherlands. Electronic address: jjcdevries@lumc.nl., Brown JR; Microbiology, Virology and Infection Prevention & Control, Great Ormond Street Hospital for Children NHS Foundation Trust, London, United Kingdom. Electronic address: julianne.brown@gosh.nhs.uk., Couto N; Milner Centre for Evolution, Department of Biology and Biochemistry, University of Bath, Bath, United Kingdom. Electronic address: nmgdc20@bath.ac.uk., Beer M; Friedrich-Loeffler-Institute, Institute of Diagnostic Virology, Greifswald, Germany. Electronic address: martin.beer@fli.de., Le Mercier P; Swiss Institute of Bioinformatics, Geneva, Switzerland. Electronic address: Philippe.Lemercier@sib.swiss., Sidorov I; Clinical Microbiological Laboratory, department of Medical Microbiology, Leiden University Medical Center, Leiden, the Netherlands. Electronic address: I.A.Sidorov@lumc.nl., Papa A; Department of Microbiology, Medical School, Aristotle University of Thessaloniki, Greece. Electronic address: annap@auth.gr., Fischer N; University Medical Center Hamburg-Eppendorf, UKE Institute for Medical Microbiology, Virology and Hygiene, Germany. Electronic address: nfischer@uke.de., Oude Munnink BB; Viroscience, Erasmus Medical Center, Rotterdam, the Netherlands. Electronic address: b.oudemunnink@erasmusmc.nl., Rodriquez C; Department of Virology, University hospital Henri Mondor, Assistance Public des Hopitaux de Paris, Créteil, France. Electronic address: christophe.rodriguez@aphp.fr., Zaheri M; Institute of Medical Virology, University of Zurich, Switzerland. Electronic address: zaheri.maryam@virology.uzh.ch., Sayiner A; Dokuz Eylul University, Medical Faculty, Department of Medical Microbiology, Izmir, Turkey. Electronic address: arzu.sayiner@deu.edu.tr., Hönemann M; Institute of Virology, Leipzig University, Leipzig, Germany. Electronic address: Mario.Hoenemann@medizin.uni-leipzig.de., Cataluna AP; Department of Preservation and Food Safety Technologies, IATA-CSIC, Paterna, Valencia, Spain. Electronic address: alba.perez@iata.csic.es., Carbo EC; Clinical Microbiological Laboratory, department of Medical Microbiology, Leiden University Medical Center, Leiden, the Netherlands. Electronic address: E.C.Carbo@lumc.nl., Bachofen C; Institute of Virology, University of Zurich, Switzerland. Electronic address: claudia.bachofen@uzh.ch., Kubacki J; Institute of Virology, University of Zurich, Switzerland. Electronic address: jakub.kubacki@uzh.ch., Schmitz D; RIVM National Institute for Public Health and Environment, Bilthoven, the Netherlands. Electronic address: Dennis.Schmitz@RIVM.nl., Tsioka K; Department of Microbiology, Medical School, Aristotle University of Thessaloniki, Greece. Electronic address: aik.tsioka@gmail.com., Matamoros S; Medical Microbiology and Infection Control, Amsterdam UMC, Amsterdam, the Netherlands. Electronic address: s.p.matamoros@amsterdamumc.nl., Höper D; Friedrich-Loeffler-Institute, Institute of Diagnostic Virology, Greifswald, Germany. Electronic address: dirk.hoeper@fli.de., Hernandez M; Laboratory of Molecular Biology and Microbiology, Instituto Tecnologico Agrario de Castilla y Leon, Valladolid, Spain. Electronic address: hernandez.marta@gmail.com., Puchhammer-Stöckl E; Center of Virology, Medical University Vienna, Vienna, Austria. Electronic address: elisabeth.puchhammer@meduniwien.ac.at., Lebrand A; Swiss Institute of Bioinformatics, Geneva, Switzerland. Electronic address: aitana.lebrand@sib.swiss., Huber M; Institute of Medical Virology, University of Zurich, Switzerland. Electronic address: huber.michael@virology.uzh.ch., Simmonds P; Nuffield Department of Medicine, University of Oxford, Oxford, UK. Electronic address: peter.simmonds@ndm.ox.ac.uk., Claas ECJ; Clinical Microbiological Laboratory, department of Medical Microbiology, Leiden University Medical Center, Leiden, the Netherlands. Electronic address: E.C.J.Claas@lumc.nl., López-Labrador FX; Virology Laboratory, Genomics and Health Area, Centre for Public Health Research (FISABIO-Public Health), Valencia, Spain; Department of Microbiology, Medical School, University of Valencia, Spain; CIBERESP, Instituto de Salud Carlos III, Madrid, Spain. Electronic address: F.Xavier.Lopez@uv.es.
Corporate Authors: ESCV Network on Next-Generation Sequencing
Source: Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology [J Clin Virol] 2021 May; Vol. 138, pp. 104812. Date of Electronic Publication: 2021 Mar 26.
Publication Type: Journal Article
Journal Info: Publisher: Elsevier Science Country of Publication: Netherlands NLM ID: 9815671 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1873-5967 (Electronic) Linking ISSN: 13866532 NLM ISO Abbreviation: J Clin Virol Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting.
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  Data: <searchLink fieldCode="AU" term="%22de+Vries+JJC%22">de Vries JJC</searchLink>; Clinical Microbiological Laboratory, department of Medical Microbiology, Leiden University Medical Center, Leiden, the Netherlands. Electronic address: jjcdevries@lumc.nl.<br /><searchLink fieldCode="AU" term="%22Brown+JR%22">Brown JR</searchLink>; Microbiology, Virology and Infection Prevention & Control, Great Ormond Street Hospital for Children NHS Foundation Trust, London, United Kingdom. Electronic address: julianne.brown@gosh.nhs.uk.<br /><searchLink fieldCode="AU" term="%22Couto+N%22">Couto N</searchLink>; Milner Centre for Evolution, Department of Biology and Biochemistry, University of Bath, Bath, United Kingdom. Electronic address: nmgdc20@bath.ac.uk.<br /><searchLink fieldCode="AU" term="%22Beer+M%22">Beer M</searchLink>; Friedrich-Loeffler-Institute, Institute of Diagnostic Virology, Greifswald, Germany. Electronic address: martin.beer@fli.de.<br /><searchLink fieldCode="AU" term="%22Le+Mercier+P%22">Le Mercier P</searchLink>; Swiss Institute of Bioinformatics, Geneva, Switzerland. Electronic address: Philippe.Lemercier@sib.swiss.<br /><searchLink fieldCode="AU" term="%22Sidorov+I%22">Sidorov I</searchLink>; Clinical Microbiological Laboratory, department of Medical Microbiology, Leiden University Medical Center, Leiden, the Netherlands. Electronic address: I.A.Sidorov@lumc.nl.<br /><searchLink fieldCode="AU" term="%22Papa+A%22">Papa A</searchLink>; Department of Microbiology, Medical School, Aristotle University of Thessaloniki, Greece. Electronic address: annap@auth.gr.<br /><searchLink fieldCode="AU" term="%22Fischer+N%22">Fischer N</searchLink>; University Medical Center Hamburg-Eppendorf, UKE Institute for Medical Microbiology, Virology and Hygiene, Germany. Electronic address: nfischer@uke.de.<br /><searchLink fieldCode="AU" term="%22Oude+Munnink+BB%22">Oude Munnink BB</searchLink>; Viroscience, Erasmus Medical Center, Rotterdam, the Netherlands. Electronic address: b.oudemunnink@erasmusmc.nl.<br /><searchLink fieldCode="AU" term="%22Rodriquez+C%22">Rodriquez C</searchLink>; Department of Virology, University hospital Henri Mondor, Assistance Public des Hopitaux de Paris, Créteil, France. Electronic address: christophe.rodriguez@aphp.fr.<br /><searchLink fieldCode="AU" term="%22Zaheri+M%22">Zaheri M</searchLink>; Institute of Medical Virology, University of Zurich, Switzerland. Electronic address: zaheri.maryam@virology.uzh.ch.<br /><searchLink fieldCode="AU" term="%22Sayiner+A%22">Sayiner A</searchLink>; Dokuz Eylul University, Medical Faculty, Department of Medical Microbiology, Izmir, Turkey. Electronic address: arzu.sayiner@deu.edu.tr.<br /><searchLink fieldCode="AU" term="%22Hönemann+M%22">Hönemann M</searchLink>; Institute of Virology, Leipzig University, Leipzig, Germany. Electronic address: Mario.Hoenemann@medizin.uni-leipzig.de.<br /><searchLink fieldCode="AU" term="%22Cataluna+AP%22">Cataluna AP</searchLink>; Department of Preservation and Food Safety Technologies, IATA-CSIC, Paterna, Valencia, Spain. Electronic address: alba.perez@iata.csic.es.<br /><searchLink fieldCode="AU" term="%22Carbo+EC%22">Carbo EC</searchLink>; Clinical Microbiological Laboratory, department of Medical Microbiology, Leiden University Medical Center, Leiden, the Netherlands. Electronic address: E.C.Carbo@lumc.nl.<br /><searchLink fieldCode="AU" term="%22Bachofen+C%22">Bachofen C</searchLink>; Institute of Virology, University of Zurich, Switzerland. Electronic address: claudia.bachofen@uzh.ch.<br /><searchLink fieldCode="AU" term="%22Kubacki+J%22">Kubacki J</searchLink>; Institute of Virology, University of Zurich, Switzerland. Electronic address: jakub.kubacki@uzh.ch.<br /><searchLink fieldCode="AU" term="%22Schmitz+D%22">Schmitz D</searchLink>; RIVM National Institute for Public Health and Environment, Bilthoven, the Netherlands. Electronic address: Dennis.Schmitz@RIVM.nl.<br /><searchLink fieldCode="AU" term="%22Tsioka+K%22">Tsioka K</searchLink>; Department of Microbiology, Medical School, Aristotle University of Thessaloniki, Greece. Electronic address: aik.tsioka@gmail.com.<br /><searchLink fieldCode="AU" term="%22Matamoros+S%22">Matamoros S</searchLink>; Medical Microbiology and Infection Control, Amsterdam UMC, Amsterdam, the Netherlands. Electronic address: s.p.matamoros@amsterdamumc.nl.<br /><searchLink fieldCode="AU" term="%22Höper+D%22">Höper D</searchLink>; Friedrich-Loeffler-Institute, Institute of Diagnostic Virology, Greifswald, Germany. Electronic address: dirk.hoeper@fli.de.<br /><searchLink fieldCode="AU" term="%22Hernandez+M%22">Hernandez M</searchLink>; Laboratory of Molecular Biology and Microbiology, Instituto Tecnologico Agrario de Castilla y Leon, Valladolid, Spain. Electronic address: hernandez.marta@gmail.com.<br /><searchLink fieldCode="AU" term="%22Puchhammer-Stöckl+E%22">Puchhammer-Stöckl E</searchLink>; Center of Virology, Medical University Vienna, Vienna, Austria. Electronic address: elisabeth.puchhammer@meduniwien.ac.at.<br /><searchLink fieldCode="AU" term="%22Lebrand+A%22">Lebrand A</searchLink>; Swiss Institute of Bioinformatics, Geneva, Switzerland. Electronic address: aitana.lebrand@sib.swiss.<br /><searchLink fieldCode="AU" term="%22Huber+M%22">Huber M</searchLink>; Institute of Medical Virology, University of Zurich, Switzerland. Electronic address: huber.michael@virology.uzh.ch.<br /><searchLink fieldCode="AU" term="%22Simmonds+P%22">Simmonds P</searchLink>; Nuffield Department of Medicine, University of Oxford, Oxford, UK. Electronic address: peter.simmonds@ndm.ox.ac.uk.<br /><searchLink fieldCode="AU" term="%22Claas+ECJ%22">Claas ECJ</searchLink>; Clinical Microbiological Laboratory, department of Medical Microbiology, Leiden University Medical Center, Leiden, the Netherlands. Electronic address: E.C.J.Claas@lumc.nl.<br /><searchLink fieldCode="AU" term="%22López-Labrador+FX%22">López-Labrador FX</searchLink>; Virology Laboratory, Genomics and Health Area, Centre for Public Health Research (FISABIO-Public Health), Valencia, Spain; Department of Microbiology, Medical School, University of Valencia, Spain; CIBERESP, Instituto de Salud Carlos III, Madrid, Spain. Electronic address: F.Xavier.Lopez@uv.es.
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