Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting
Metagenomic next-generation sequencing (mNGS) is an untargeted technique for determination of microbial DNA/RNA sequences in a variety of sample types from patients with infectious syndromes. mNGS is still in its early stages of broader translation into clinical applications. To further support the...
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| Veröffentlicht in: | Journal of clinical virology 2021-05, Vol.138, p.104812-104812, Article 104812 |
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| creator | de Vries, Jutte J.C. Brown, Julianne R. Couto, Natacha Beer, Martin Le Mercier, Philippe Sidorov, Igor Papa, Anna Fischer, Nicole Oude Munnink, Bas B. Rodriquez, Christophe Zaheri, Maryam Sayiner, Arzu Hönemann, Mario Pérez-Cataluña, Alba Carbo, Ellen C. Bachofen, Claudia Kubacki, Jakub Schmitz, Dennis Tsioka, Katerina Matamoros, Sébastien Höper, Dirk Hernandez, Marta Puchhammer-Stöckl, Elisabeth Lebrand, Aitana Huber, Michael Simmonds, Peter Claas, Eric C.J. López-Labrador, F. Xavier |
| description | Metagenomic next-generation sequencing (mNGS) is an untargeted technique for determination of microbial DNA/RNA sequences in a variety of sample types from patients with infectious syndromes. mNGS is still in its early stages of broader translation into clinical applications. To further support the development, implementation, optimization and standardization of mNGS procedures for virus diagnostics, the European Society for Clinical Virology (ESCV) Network on Next-Generation Sequencing (ENNGS) has been established. The aim of ENNGS is to bring together professionals involved in mNGS for viral diagnostics to share methodologies and experiences, and to develop application guidelines. Following the ENNGS publication Recommendations for the introduction of mNGS in clinical virology, part I: wet lab procedure in this journal, the current manuscript aims to provide practical recommendations for the bioinformatic analysis of mNGS data and reporting of results to clinicians. |
| doi_str_mv | 10.1016/j.jcv.2021.104812 |
| format | Article |
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Xavier</creator><creatorcontrib>de Vries, Jutte J.C. ; Brown, Julianne R. ; Couto, Natacha ; Beer, Martin ; Le Mercier, Philippe ; Sidorov, Igor ; Papa, Anna ; Fischer, Nicole ; Oude Munnink, Bas B. ; Rodriquez, Christophe ; Zaheri, Maryam ; Sayiner, Arzu ; Hönemann, Mario ; Pérez-Cataluña, Alba ; Carbo, Ellen C. ; Bachofen, Claudia ; Kubacki, Jakub ; Schmitz, Dennis ; Tsioka, Katerina ; Matamoros, Sébastien ; Höper, Dirk ; Hernandez, Marta ; Puchhammer-Stöckl, Elisabeth ; Lebrand, Aitana ; Huber, Michael ; Simmonds, Peter ; Claas, Eric C.J. ; López-Labrador, F. Xavier ; on behalf of the ESCV Network on Next-Generation Sequencing ; ESCV Network on Next-Generation Sequencing</creatorcontrib><description>Metagenomic next-generation sequencing (mNGS) is an untargeted technique for determination of microbial DNA/RNA sequences in a variety of sample types from patients with infectious syndromes. mNGS is still in its early stages of broader translation into clinical applications. To further support the development, implementation, optimization and standardization of mNGS procedures for virus diagnostics, the European Society for Clinical Virology (ESCV) Network on Next-Generation Sequencing (ENNGS) has been established. The aim of ENNGS is to bring together professionals involved in mNGS for viral diagnostics to share methodologies and experiences, and to develop application guidelines. 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All rights reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c462t-48922a610ffb4010624c2ee37bde09f91bffc764057372b7c212bede35339e0c3</citedby><cites>FETCH-LOGICAL-c462t-48922a610ffb4010624c2ee37bde09f91bffc764057372b7c212bede35339e0c3</cites><orcidid>0000-0001-6519-4983 ; 0000-0003-2530-6260 ; 0000-0001-6132-2298 ; 0000-0003-2777-835X ; 0000-0001-7517-402X ; 0000-0002-9403-8258 ; 0000-0002-9152-5464 ; 0000-0002-4681-9586</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S1386653221000792$$EHTML$$P50$$Gelsevier$$Hfree_for_read</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65306</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/33819811$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>de Vries, Jutte J.C.</creatorcontrib><creatorcontrib>Brown, Julianne R.</creatorcontrib><creatorcontrib>Couto, Natacha</creatorcontrib><creatorcontrib>Beer, Martin</creatorcontrib><creatorcontrib>Le Mercier, Philippe</creatorcontrib><creatorcontrib>Sidorov, Igor</creatorcontrib><creatorcontrib>Papa, Anna</creatorcontrib><creatorcontrib>Fischer, Nicole</creatorcontrib><creatorcontrib>Oude Munnink, Bas B.</creatorcontrib><creatorcontrib>Rodriquez, Christophe</creatorcontrib><creatorcontrib>Zaheri, Maryam</creatorcontrib><creatorcontrib>Sayiner, Arzu</creatorcontrib><creatorcontrib>Hönemann, Mario</creatorcontrib><creatorcontrib>Pérez-Cataluña, Alba</creatorcontrib><creatorcontrib>Carbo, Ellen C.</creatorcontrib><creatorcontrib>Bachofen, Claudia</creatorcontrib><creatorcontrib>Kubacki, Jakub</creatorcontrib><creatorcontrib>Schmitz, Dennis</creatorcontrib><creatorcontrib>Tsioka, Katerina</creatorcontrib><creatorcontrib>Matamoros, Sébastien</creatorcontrib><creatorcontrib>Höper, Dirk</creatorcontrib><creatorcontrib>Hernandez, Marta</creatorcontrib><creatorcontrib>Puchhammer-Stöckl, Elisabeth</creatorcontrib><creatorcontrib>Lebrand, Aitana</creatorcontrib><creatorcontrib>Huber, Michael</creatorcontrib><creatorcontrib>Simmonds, Peter</creatorcontrib><creatorcontrib>Claas, Eric C.J.</creatorcontrib><creatorcontrib>López-Labrador, F. Xavier</creatorcontrib><creatorcontrib>on behalf of the ESCV Network on Next-Generation Sequencing</creatorcontrib><creatorcontrib>ESCV Network on Next-Generation Sequencing</creatorcontrib><title>Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting</title><title>Journal of clinical virology</title><addtitle>J Clin Virol</addtitle><description>Metagenomic next-generation sequencing (mNGS) is an untargeted technique for determination of microbial DNA/RNA sequences in a variety of sample types from patients with infectious syndromes. mNGS is still in its early stages of broader translation into clinical applications. To further support the development, implementation, optimization and standardization of mNGS procedures for virus diagnostics, the European Society for Clinical Virology (ESCV) Network on Next-Generation Sequencing (ENNGS) has been established. 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| source | Elsevier ScienceDirect Journals |
| subjects | Bioinformatics Diagnostics NGS/HTS Pathogens Pipeline Viral metagenomics |
| title | Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting |
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