Canakoglu, A.; Pinoli, P.; Bernasconi, A.; Alfonsi, T.; Melidis, D.P. et al.: ViruSurf: An integrated database to investigate viral sequences. In: Nucleic Acids Research 49 (2021), Nr. D1, S. D817-D824. DOI: https://doi.org/10.1093/nar/gkaa846
Abstract: | |
ViruSurf, available at http://gmql.eu/virusurf/, is a large public database of viral sequences and integrated and curated metadata from heterogeneous sources (RefSeq, GenBank, COG-UK and NMDC); it also exposes computed nucleotide and amino acid variants, called from original sequences. A GISAID-specific ViruSurf database, available at http://gmql.eu/virusurf gisaid/, offers a subset of these functionalities. Given the current pandemic outbreak, SARS-CoV-2 data are collected from the four sources; but ViruSurf contains other virus species harmful to humans, including SARS-CoV, MERS-CoV, Ebola and Dengue. The database is centered on sequences, described from their biological, technological and organizational dimensions. In addition, the analytical dimension characterizes the sequence in terms of its annotations and variants. The web interface enables expressing complex search queries in a simple way; arbitrary search queries can freely combine conditions on attributes from the four dimensions, extracting the resulting sequences. Several example queries on the database confirm and possibly improve results from recent research papers; results can be recomputed over time and upon selected populations. Effective search over large and curated sequence data may enable faster responses to future threats that could arise from new viruses. | |
License of this version: | CC BY 4.0 Unported |
Document Type: | Article |
Publishing status: | publishedVersion |
Issue Date: | 2020 |
Appears in Collections: | Forschungszentren |
pos. | country | downloads | ||
---|---|---|---|---|
total | perc. | |||
1 | ![]() |
United States | 9 | 42.86% |
2 | ![]() |
Germany | 4 | 19.05% |
3 | ![]() |
United Kingdom | 3 | 14.29% |
4 | ![]() |
No geo information available | 2 | 9.52% |
5 | ![]() |
Japan | 2 | 9.52% |
6 | ![]() |
Iran, Islamic Republic of | 1 | 4.76% |
Hinweis
Zur Erhebung der Downloadstatistiken kommen entsprechend dem „COUNTER Code of Practice for e-Resources“ international anerkannte Regeln und Normen zur Anwendung. COUNTER ist eine internationale Non-Profit-Organisation, in der Bibliotheksverbände, Datenbankanbieter und Verlage gemeinsam an Standards zur Erhebung, Speicherung und Verarbeitung von Nutzungsdaten elektronischer Ressourcen arbeiten, welche so Objektivität und Vergleichbarkeit gewährleisten sollen. Es werden hierbei ausschließlich Zugriffe auf die entsprechenden Volltexte ausgewertet, keine Aufrufe der Website an sich.