Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection.
Cast your vote
You can rate an item by clicking the amount of stars they wish to award to this item.
When enough users have cast their vote on this item, the average rating will also be shown.
Your vote was cast
Thank you for your feedback
Thank you for your feedback
de Sousa, Rita
Koopmans, Marion P G
On Behalf Of The HAVNet Network
MetadataShow full item record
TitleUsability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection.
Published inEuro Surveill 2018; 23(37):pii.1700802
PubliekssamenvattingBackgroundHAVNet 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.
The following license files are associated with this item:
- Creative Commons
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
- Recovery and sequence analysis of hepatitis a virus from springwater implicated in an outbreak of acute viral hepatitis.
- Authors: Tallon LA, Love DC, Moore ZS, Sobsey MD
- Issue date: 2008 Oct
- Hepatitis A virus: host interactions, molecular epidemiology and evolution.
- Authors: Vaughan G, Goncalves Rossi LM, Forbi JC, de Paula VS, Purdy MA, Xia G, Khudyakov YE
- Issue date: 2014 Jan
- Recombination in hepatitis A virus: evidence for reproductive isolation of genotypes.
- Authors: Belalov IS, Isaeva OV, Lukashev AN
- Issue date: 2011 Apr
- Hepatitis a virus genotypes and strains from an endemic area of Europe, Bulgaria 2012-2014.
- Authors: Bruni R, Taffon S, Equestre M, Cella E, Lo Presti A, Costantino A, Chionne P, Madonna E, Golkocheva-Markova E, Bankova D, Ciccozzi M, Teoharov P, Ciccaglione AR
- Issue date: 2017 Jul 14
- Sequential changes in hepatitis A virus genotype distribution in Estonia during 1994 to 2001.
- Authors: Tallo T, Norder H, Tefanova V, Ott K, Ustina V, Prukk T, Solomonova O, Schmidt J, Zilmer K, Priimägi L, Krispin T, Magnius LO
- Issue date: 2003 Jun