Bioinformatics tools: Computational methods for the identification of Dengue, Zika, Chikungunya and Yellow Fever Virus species and genotypes

We recently produced open access phylogenetic typing tools to classify Arboviruses, including Dengue, Zika, Chikungunya and Yellow Fever Virus. These tools are been widely used by the scientific community and were published in Science (2018) and PLoS NTD (2019).

Dengue, Zika, Chikungunya and Yellow Fever Virus typing tools

Click on the link below to access the tools:

- Chikungunya Typing Tool

- Dengue Virus Typing Tool

- Yellow Fever Virus Typing Tool

- Zika Typing Tool

- Genome Detective (Allows >8,000 viruses to be analysed, including the above mentioned arbovirus)

Click on the link below to have free access to the publications describing the tools:

- Chikungunya, Dengue and Zika - A computational method for the identification of Dengue, Zika and Chikungunya virus species and genotypes. PLoS NTD 2019.

- Yellow Fever Virus - Genomic and epidemiological monitoring of yellow fever virus transmission potential. Science 2018.

- Genome Detective - Genome Detective: An Automated System for Virus Identification from High-throughput sequencing data. Bioinformatics 2019.

These tools are part of a long term and successful collaboration with University of Oxford, EMWEB (Belgium) and FioCruz Foundation (Brazil). The development of the tools have been funded by the SAMRC Flagship Program, the European Commission H2020 Virogenesis program and the NIH H3Africa H3AbioNet program.

News date: 2019-06-30


Publication cited

Reduced efficacy of HIV-1 integrase inhibitors in patients with drug resistance mutations in reverse transcriptase. Siedner MJ, Moorhouse MA, Simmons B, de Oliveira T, Lessells R, Giandhari J, Kemp SA, Chimukangara B, Akpomiemie G, Serenata Cm, Venter WDF, HillA, Gupta RK, Nature Communications (2020),

KRISP has been created by the coordinated effort of the University of KwaZulu-Natal (UKZN), the Technology Innovation Agency (TIA) and the South African Medical Research Countil (SAMRC).

Location: K-RITH Tower Building
Nelson R Mandela School of Medicine, UKZN
719 Umbilo Road, Durban, South Africa.
Director: Prof. Tulio de Oliveira