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dc.contributor.authorKroneman, Annelies
dc.contributor.authorde Sousa, Rita
dc.contributor.authorVerhoef, Linda
dc.contributor.authorKoopmans, Marion P G
dc.contributor.authorVennema, Harry
dc.contributor.authorOn Behalf Of The HAVNet Network
dc.date.accessioned2018-11-15T12:42:33Z
dc.date.available2018-11-15T12:42:33Z
dc.date.issued2018-09
dc.identifier.citationUsability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection. 2018, 23 (37) Euro Surveill.en
dc.identifier.issn1560-7917
dc.identifier.pmid30229723
dc.identifier.doi10.2807/1560-7917.ES.2018.23.37.1700802
dc.identifier.urihttp://hdl.handle.net/10029/622217
dc.description.abstractBackgroundHAVNet is an international laboratory network sharing sequences and corresponding metadata on hepatitis A virus in an online database. Aim: We give an overview of the epidemiological and genetic data and assess the usability of the present dataset for geographical annotation, backtracing and outbreak detection. Methods: A descriptive analysis was performed on the timeliness, completeness, epidemiological data and geographic coverage of the dataset. Length and genomic region of the sequences were reviewed as well as the numerical and geographical distribution of the genotypes. The geographical signal in the sequences was assessed based on a short common nt stretch using a 100% identity analysis. Results: The 9,211 reports were heterogeneous for completeness and timeliness, and for length and genomic region of the sequences. Some parts of the world were not represented by the sequences. Geographical differences in prevalence of HAV genotypes described previously could be confirmed with this dataset and for a third (1,075/3,124) of the included sequences, 100% identity of the short common sequence coincided with an identical country of origin. Conclusion: Analysis of a subset of short, shared sequences indicates that a geographical annotation on the level of individual countries is possible with the HAVNet data. If the current incompleteness and heterogeneity of the data can be improved on, HAVNet could become very useful as a worldwide reference set for geographical annotation and for backtracing and outbreak detection.
dc.language.isoenen
dc.rightsArchived with thanks to Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletinen
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/*
dc.titleUsability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection.en
dc.typeArticleen
dc.identifier.journalEuro Surveill 2018; 23(37):pii.1700802en
refterms.dateFOA2018-12-18T14:34:40Z
html.description.abstractBackgroundHAVNet is an international laboratory network sharing sequences and corresponding metadata on hepatitis A virus in an online database. Aim: We give an overview of the epidemiological and genetic data and assess the usability of the present dataset for geographical annotation, backtracing and outbreak detection. Methods: A descriptive analysis was performed on the timeliness, completeness, epidemiological data and geographic coverage of the dataset. Length and genomic region of the sequences were reviewed as well as the numerical and geographical distribution of the genotypes. The geographical signal in the sequences was assessed based on a short common nt stretch using a 100% identity analysis. Results: The 9,211 reports were heterogeneous for completeness and timeliness, and for length and genomic region of the sequences. Some parts of the world were not represented by the sequences. Geographical differences in prevalence of HAV genotypes described previously could be confirmed with this dataset and for a third (1,075/3,124) of the included sequences, 100% identity of the short common sequence coincided with an identical country of origin. Conclusion: Analysis of a subset of short, shared sequences indicates that a geographical annotation on the level of individual countries is possible with the HAVNet data. If the current incompleteness and heterogeneity of the data can be improved on, HAVNet could become very useful as a worldwide reference set for geographical annotation and for backtracing and outbreak detection.


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Archived with thanks to Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin
Except where otherwise noted, this item's license is described as Archived with thanks to Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin