Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection
| Autor(a) principal: | |
|---|---|
| Data de Publicação: | 2018 |
| Outros Autores: | , , , , |
| Tipo de documento: | Artigo |
| Idioma: | eng |
| Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
| Texto Completo: | http://hdl.handle.net/10400.18/5834 |
Resumo: | Free PMC Article: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6144472/ |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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7160 |
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Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detectionCluster AnalysisDatabaseGenotypeHepatitis A VirusMolecular TypingInfecções Sistémicas e ZoonosesFree PMC Article: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6144472/Background:HAVNet 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.ECDCEuropean Centre for Disease Prevention and ControlRepositório Científico do Instituto Nacional de SaúdeKroneman, A.de Sousa, R.Verhoef, L.Koopmans, M.P.G.Vennema, H.On Behalf Of The HAVNet Network2019-02-15T15:32:30Z2018-092018-09-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10400.18/5834engEuro Surveill. 2018 Sep;23(37):pii=1700802. doi: 10.2807/1560-7917.ES.2018.23.37.17008021560-791710.2807/1560-7917.ES.2018.23.37.1700802info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2023-07-20T15:41:00Zoai:repositorio.insa.pt:10400.18/5834Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T18:40:23.215113Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse |
| dc.title.none.fl_str_mv |
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection |
| title |
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection |
| spellingShingle |
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection Kroneman, A. Cluster Analysis Database Genotype Hepatitis A Virus Molecular Typing Infecções Sistémicas e Zoonoses |
| title_short |
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection |
| title_full |
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection |
| title_fullStr |
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection |
| title_full_unstemmed |
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection |
| title_sort |
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection |
| author |
Kroneman, A. |
| author_facet |
Kroneman, A. de Sousa, R. Verhoef, L. Koopmans, M.P.G. Vennema, H. On Behalf Of The HAVNet Network |
| author_role |
author |
| author2 |
de Sousa, R. Verhoef, L. Koopmans, M.P.G. Vennema, H. On Behalf Of The HAVNet Network |
| author2_role |
author author author author author |
| dc.contributor.none.fl_str_mv |
Repositório Científico do Instituto Nacional de Saúde |
| dc.contributor.author.fl_str_mv |
Kroneman, A. de Sousa, R. Verhoef, L. Koopmans, M.P.G. Vennema, H. On Behalf Of The HAVNet Network |
| dc.subject.por.fl_str_mv |
Cluster Analysis Database Genotype Hepatitis A Virus Molecular Typing Infecções Sistémicas e Zoonoses |
| topic |
Cluster Analysis Database Genotype Hepatitis A Virus Molecular Typing Infecções Sistémicas e Zoonoses |
| description |
Free PMC Article: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6144472/ |
| publishDate |
2018 |
| dc.date.none.fl_str_mv |
2018-09 2018-09-01T00:00:00Z 2019-02-15T15:32:30Z |
| dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
| dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| status_str |
publishedVersion |
| dc.identifier.uri.fl_str_mv |
http://hdl.handle.net/10400.18/5834 |
| url |
http://hdl.handle.net/10400.18/5834 |
| dc.language.iso.fl_str_mv |
eng |
| language |
eng |
| dc.relation.none.fl_str_mv |
Euro Surveill. 2018 Sep;23(37):pii=1700802. doi: 10.2807/1560-7917.ES.2018.23.37.1700802 1560-7917 10.2807/1560-7917.ES.2018.23.37.1700802 |
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info:eu-repo/semantics/openAccess |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
application/pdf |
| dc.publisher.none.fl_str_mv |
European Centre for Disease Prevention and Control |
| publisher.none.fl_str_mv |
European Centre for Disease Prevention and Control |
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reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação instacron:RCAAP |
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Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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RCAAP |
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RCAAP |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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