A public HTLV-1 molecular epidemiology database for sequence management and data mining

dc.creatorAraújo, Thessika Hialla Almeida
dc.creatorBrito, Leandro Inácio Souza
dc.creatorLibin, Pieter
dc.creatorDeforche, Koen
dc.creatorEdwards, Dustin
dc.creatorAlbuquerque Junior, Antonio Eduardo de
dc.creatorVandamme, Anne-Mieke
dc.creatorCastro Filho, Bernardo Galvão
dc.creatorAlcantara, Luiz Carlos Júnior
dc.date2012-11-20T17:47:48Z
dc.date2012-11-20T17:47:48Z
dc.date2012
dc.date.accessioned2023-09-27T00:00:13Z
dc.date.available2023-09-27T00:00:13Z
dc.identifierARAUJO, T. H. et al. A public HTLV-1 molecular epidemiology database for sequence management and data mining. PLoS One, v. 7, n. 9, p. 1-4, Sept. 2012.
dc.identifier1932-6203
dc.identifierhttps://www.arca.fiocruz.br/handle/icict/5837
dc.identifier10.1371/journal.pone.0042123
dc.identifier.urihttps://repositorioslatinoamericanos.uchile.cl/handle/2250/8896431
dc.descriptionIt is estimated that 15 to 20 million people are infected with the human T-cell lymphotropic virus type 1 (HTLV-1). At present, there are more than 2,000 unique HTLV-1 isolate sequences published. A central database to aggregate sequence information from a range of epidemiological aspects including HTLV-1 infections, pathogenesis, origins, and evolutionary dynamics would be useful to scientists and physicians worldwide. Described here, we have developed a database that collects and annotates sequence data and can be accessed through a user-friendly search interface. The HTLV-1 Molecular Epidemiology Database website is available at http://htlv1db.bahia.fiocruz.br/. METHODOLOGY/PRINCIPAL FINDINGS: All data was obtained from publications available at GenBank or through contact with the authors. The database was developed using Apache Webserver 2.1.6 and SGBD MySQL. The webpage interfaces were developed in HTML and sever-side scripting written in PHP. The HTLV-1 Molecular Epidemiology Database is hosted on the Gonçalo Moniz/FIOCRUZ Research Center server. There are currently 2,457 registered sequences with 2,024 (82.37%) of those sequences representing unique isolates. Of these sequences, 803 (39.67%) contain information about clinical status (TSP/HAM, 17.19%; ATL, 7.41%; asymptomatic, 12.89%; other diseases, 2.17%; and no information, 60.32%). Further, 7.26% of sequences contain information on patient gender while 5.23% of sequences provide the age of the patient. CONCLUSIONS/SIGNIFICANCE: The HTLV-1 Molecular Epidemiology Database retrieves and stores annotated HTLV-1 proviral sequences from clinical, epidemiological, and geographical studies. The collected sequences and related information are now accessible on a publically available and user-friendly website. This open-access database will support clinical research and vaccine development related to viral genotype.
dc.formatapplication/pdf
dc.languageeng
dc.rightsopen access
dc.subjectHTLV-1
dc.subjectEpidemiologia molecular
dc.subjectBanco de dados
dc.subjectPesquisa
dc.subjectHTLV-1
dc.subjectMolecular Epidemiology
dc.subjectDatabase
dc.subjectSearch
dc.subjectVaccine
dc.titleA public HTLV-1 molecular epidemiology database for sequence management and data mining
dc.typeArticle


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