KRISP NEWS
KRISP at UKZN partner with Stanford University on a global innovation program: SPARK GLOBAL: Translational Scientists without borders. As part of this program we run a monthly meeting (first Wednesday of EVERY MONTH) to discuss innovation, select and mentor start-ups that can produce translational research.
Durban SPARK Innovation Breakfast by Barlow Manilal, CEO TIA, Wednesday, 7 November 2018 (7:30am - 8:30), KRISP, K-RITH building, Nelson R Mandela School of Medicine, UKZN, Durban, South Africa. All welcome!
This month, we focused our newsletter on KRISP learning about new technologies and preparing the next generation of scientists. This month, we also have many publications on African Health, including on HIV drug resistance, antimicrobial activity, pre-eclampsia and smoking and depression.
KRISP Faculty teach Health Measurement Descriptive course at School of Nursing and Public Health. The aim of the course is to provide learners with skills to collect, analyse and use health information. In addition, this course provide students with an understanding of the basic principles and methods of descriptive epidemiology, descriptive biostatistics and demography.
UKZN’s KwaZulu-Natal Research Innovations and Sequencing Platform (KRISP) in collaboration with Thermo Fisher Scientific held a one-day Science, Technology, Engineering and Maths (STEM) training session for Grade 11 pupils and students on basic Polymerase Chain Reaction (PCR)
VULINDLELA, South Africa—Sweat streams from the young men’s faces as they pursue a soccer ball across a sun-baked pitch of red dust.
KRISP Talks by Prof. Caroline Tiemessen, Models for the study of HIV remission: elite and post-treatment controllers, UKZN, Tuesday, 9 October 2018 (11:00am - 12:00), K-RITH building, Nelson R Mandela School of Medicine, UKZN, Durban, South Africa. All welcome!
KRISP PAPERS
Genomic and epidemiological monitoring of yellow fever virus transmission potential.
Faria NR, Kraemer MUG, S C Hill, J Goes de Jesus, R S Aguiar, F C M Iani, J Xavier, J Quick, L du Plessis, S Dellicour, J Thézé, R D O Carvalho, G Baele, C-H Wu, P P Silveira, M B Arruda, M A Pereira, G C Pereira, J Lourenço1, U Obolski, L Abade, T I Vasylyeva, M Giovanetti, D Yi, D J Weiss, G R W Wint, F M Shearer, S Funk, B Nikolay, Fonseca V, T E R Adelino, M A A Oliveira, M V F Silva, L Sacchetto, P O Figueiredo, I M Rezende, E M Mello, R F C Said, D A Santos, M L Ferraz, M G Brito, L F Santana, M T Menezes, R M Brindeiro, A Tanuri, F C P dos Santos, M S Cunha, J S Nogueira, I M Rocco, A C da Costa, S C V Komninakis, V Azevedo, A O Chieppe, E S M Araujo, M C L Mendonça, C C dos Santos, C D dos Santos, A M Mares-Guia, R M R Nogueira, P C Sequeira, R G Abreu, M H O Garcia, A L Abreu, O Okumoto, E G Kroon, C F C de Albuquerque, K Lewandowski, S T Pullan, M Carroll, de Oliveira T, E C Sabino, R P Souza, M A Suchard, P Lemey, G S Trindade, B P Drumond, A M B Filippis, N J Loman, S Cauchemez, Alcantara LCJ, Pybus OG , Science (2018), DOI: 10.1126/science.aat7115:.
Genome Detective: An Automated System for Virus Identification from High-throughput sequencing data..
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, Bioinformatics (2018), doi: 10.1093/bioinformatics/bty695:.
Patterns of genomic site inheritance in HIV-1M inter-subtype recombinants delineate the most likely genomic sites of subtype-specific adaptation.
Tongo M, de Oliveira T, Martin DP, Virus Evolution (2018), Volume 4, Issue 1, 1 January 2018, vey015:.
Dolutegravir for first-line antiretroviral therapy in low-income and middle-income countries: uncertainties and opportunities for implementation and research.
Dorward J, Lessells R, Drain PK, Naidoo K, de Oliveira T, Pillay Y, Karim SSA, Garrett N, Lancet HIV (2018), https://doi.org/10.1016/S2352-3018(18)30093-6:.
Renewing Felsenstein's phylogenetic bootstrap in the era of big data.
Lemoine F, Domelevo Entfellner JB, Wilkinson E, Correia D, Davila Felipe M, de Oliveira T, Gascuel O, Nature (2018), :doi:10.1038/s41586-018-0043-0.
Ethical issues associated with HIV phylogenetics in HIV transmission dynamics research: A review of the literature using the Emanuel Framework.
Mutenherwa F, Wassenaar DR, de Oliveira T, Developing World Bioethics (2018), https://doi.org/10.1111/dewb.12191:.
Spatial clustering of drug-resistant tuberculosis in Hlabisa subdistrict, KwaZulu-Natal, 2011-2015.
Smith CM, Lessells R, Grant AD, Herbst K, Tanser F, Int J Tuberc Lung Dis. (2018), 1;22(3):287-293. doi: 10.5588/ijtld.17.0457:.
KRISP VIDEOS
STEM Education in Africa: KRISP & Thermo Fisher Scientific PCR Workshops
By: Deseree Rajpal, Sahil Tulsi, Veron Ramsuran, Jennifer Giandhari, Nicolette Crozier and Tulio de Oliveira
KRISP TEAM
KRISP BLOGS
KRISP TOOLS
2016-08-21
REGA HIV Subtyping Tool V3 - South African mirror
This tool is designed to use phylogenetic methods in order to identify the HIV-1 subtype of a specific sequence. The sequence is analysed for recombination using bootscanning methods. The version 3 contains new CRFs (CRF01_AE to CRF47_BF).
2016-08-20
This is the first version of the Zika typing tool, which uses phylogenetic analysis to identify the species and genotype of the virus.
2016-08-20
This is the first version of our Arbovirus typing tool for Chikungunya, Dengue, Yellow Fever and Zika
2016-08-20
This is the first version of the Chikungunya typing tool, which uses phylogenetic analysis to identify the species and genotype of the virus.
2016-08-20
Yellow Fever Virus Typing Tool
This is the first version of the Yellow Fever typing tool, which uses phylogenetic analysis to identify the species and genotype of the virus.
2015-11-06
This is a beta version of our Dengue Virus Typing tool. For the mean time, this tool should be used for evaluation only. Please send feedback to Tulio de Oliveira.