Genome Detective: an automated system for virus identification from high-throughput sequencing data

Authors: Vilsker M, Moosa Y, Nooij S, Fonseca V, Ghysens Y, Dumon K, Pauwels R, Alcantara LC, Vanden Eynden E, Vandamme AM, Deforche K, De Oliveira T
Publication Year: 2019
Journal: Bioinformatics
Link: https://www.ncbi.nlm.nih.gov/pubmed/30124794

Genome Detective is an easy to use web-based software application that assembles the genomes of viruses quickly and accurately. The application uses a novel alignment method that constructs genomes by reference-based linking of de novo contigs by combining amino-acids and nucleotide scores. The software was optimized using synthetic datasets to represent the great diversity of […]
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A public HTLV-1 molecular epidemiology database for sequence management and data mining.

Authors: Alcantara LC, Araújo TH, de Albuquerque-Junior AE, Edwards D, Galvão-Castro B, Souza-Brito LI, Deforche K, Libin P, Vandamme AM
Journal: PLoS One
Link: http://www.ncbi.nlm.nih.gov/pubmed/?term=A+Public+HTLV-1+Molecular+Epidemiology+Database+for+Sequence+Management+and+Data+Mining

BACKGROUND:
It 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.
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RegaDB: Community-driven data management and analysis for infectious diseases

Authors: Alcantara LC, Assel M, Ayouba A, Beheydt G, Boucher C, Camacho RJ, Carvalho AP, Cavaco-Silva J, De Bel A, De Munter P, De Oliveira T, Deforche K, Ferreira F, Grossman Z, Imbrechts S, Kaiser R, Lacor P, Lapadula G, Libin P, Otelea D, Paraschiv S, Peeters M, Ruelle J, Sloot P, Snoeck J, Theys K, Torti C, Van Laethem K, Van Wijngaerden E, Vandamme AM, Wesner S, Zazzi M
Journal: Bioinformatics
Link: http://www.ncbi.nlm.nih.gov/pubmed/23645815

RegaDB is a free and open source data management and analysis environment for infectious diseases. RegaDB allows clinicians to store, manage and analyse patient data, including viral genetic sequences. Moreover, RegaDB provides researchers with a mechanism to collect data in a uniform format and offers them a canvas to make newly developed bioinformatics tools available to clinicians and virologists through a user friendly interface.
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Genome Detective: an automated system for virus identification from high-throughput sequencing data

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

RegaDB: Community-driven data management and analysis for infectious diseases

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