Introduction

BioAfrica presents the research, software and publications of Prof. Tulio de Oliveira and members of his research group.

Prof. Tulio de Oliveira research team is based the Wellcome Trust Africa Centre for Health and Population Studies, University of KwaZulu-Natal with some of its bioinformatics servers hosted at the South African Medical Research Council. Our  molecular violorogy laboratory is based at the DDMRI building, Nelson R Mandela School of Medicine, University of KwaZulu-Natal. BioAfrica also hosts the Southern African Treatment and Resistance Network (SATuRN) website.


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Genomics Centre at UKZN, Durban. Wellcome Trust Africa Centre, Bioinformatics, South Africa
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Open access pdf Publications (latest 5)

HIV Drug Resistance Patterns at the Epicentre of the HIV-1 Epidemic in Kwazulu-Natal, South Africa 2003-2013.
Kiepiela P, Manasa J, Moosa M-Y, Moodley P, Gordon M, Parikh UM, Sunpath H, de Oliveira T, Ramjee G, J AIDS Clin Res (2014), 5:doi: 10.4172/2155-6113.1000299.

Phylogenetic studies of transmission dynamics in generalized HIV epidemics: An essential tool where the burden is greatest?.
Dennis AM, Herbeck JT, Brown AL, Kellam P, de Oliveira T, Pillay D, Fraser C, Cohen MS, J Acquir Immune Defic Syndr. (2014), in press:.

HIV-1 adaptation to antigen processing results in population-level immune evasion and affects subtype diversification.
Tenzer S, Crawford H, Pymm P, Gifford R, Sreenu VB, Weimershaus M, de Oliveira T, Burgevin A, Gerstoft J, Akkad N, Lunn D, Fugger L, Bell J, Schild H, van Endert P, Iversen AK., Cell Reports (2014), 7:doi: 10.1016/j.celrep.2014.03.031.

Circulating Biomarkers of Immune Activation Distinguish Viral Suppression from Nonsuppression in HAART-Treated Patients with Advanced HIV-1 Subtype C Infection.
Malherbe G, Steel HC, Cassol S, de Oliveira T, Seebregts CJ, Anderson R, Cassol E, Rossouw TM., Mediators Inflamm. (2014), 2014:198413:doi: 10.1155/2014/198413.

An Affordable HIV-1 Drug Resistance Monitoring Method for Resource Limited Settings.
Manasa J, Danaviah S, Pillay S, Padayachee P, Mthiyane H, Seebregts C, Rinke De Wit TF, Viljoen J, Katzenstein D, De Oliveira T , Journal of Visualized Experiments (JoVE) (2014), (85):e51242, doi:10.3791/51242.

All publications - Bioinformatics, genomics and drug resistance peer-reviewed papers on HIV, TB and other pathogens
...
News News Section, printed & online media on HIV & TB drug resistance and bioinformatics (latest 5)

WTAC Genomics Programme

Seminar: Nanotechnology and the Treatment of HIV Infection

WTAC Genomics Programme - 2014-08-22

The Wellcome Trust Africa Centre Genomics Programme & UKZN MRC Flagship project cordially invites you to a seminar presented by Dr. Louis Chonco Jimenez, 22 August 2014, K-RITH building, Nelson R Mandela School of Medicine, Durban


WTAC, UCL, LSHTM & UKZN

Postdoc Fellowship available - HIV Genomics & Bioinformatics I

WTAC, UCL, LSHTM & UKZN - 2014-07-26

We invite applications from ambitious post doctoral scientists, to undertake research in a Flagship programme of the Wellcome Trust & MRC in South Africa.This Fellowship aims to apply and develop bioinformatics software applications to analyze large datasets of complete HIV-1 genomes.


WTAC, UCL, LSHTM & UKZN

Postdoc Fellowship available - HIV Bioinformatics & Phylogenetics II

WTAC, UCL, LSHTM & UKZN - 2014-07-26

We invite applications from ambitious post doctoral scientists, to undertake research in a Flagship programme of the Wellcome Trust & MRC in South Africa.This Fellowship aims to develop and/or apply phylogenetic software applications to create a framework to identify epidemiologically important HIV strains.


WTAC, UKZN, FioCruz, CNPQ

Postdoc Fellowship available - HIV & HTLV Bioinformatics & Phylogenetics III

WTAC, UKZN, FioCruz, CNPQ - 2014-07-26

We invite applications from ambitious post doctoral scientists, to undertake research in a collaborative programme of the the Wellcome Trust Africa Centre and the FioCruz Foundation in South Africa and Brazil.This fellowship aims to apply and develop bioinformatics software applications to analyze large datasets of HIV-1 and HTLV-1 complete genomes


SATuRN

SATuRN Newsletter, Jul 2014: Annual HIVDR Workshop, News, Publications & Blogs

SATuRN - 2014-07-24

The newsletter idea is that anyone with 15 minutes to spare can learn about our work and its application in everyday life. In our second issue of 2014 (Vol. 3 Num. 2), we advertise our annual workshop, which will be presented as part of the Annual Workshop on Advanced Clinical Care - AIDS (AWACC), Durban, 8-9 Oct 2014. We also included interesting news, blogs and publications produced by our network and partners.


All news...
Blogs on bioinformatics, HIV & TB drug resistance, treatment, community engagement and bioinformatics in Africa Twitter

Genetic study indicates two novel resistance loci for severe malaria in Africa

Author: Zakia Jeewa and Tulio de Oliveira - 2014-08-01


High-Level Cross-Resistance to ddI Observed in South African Children Failing an ABC- or d4T-Based 1st-Line Regimen

Author: Jennifer Giandhari and Joanna Ledwaba - 2014-07-25


The fidelity of HIV-1 RT is not as bad as we thought

Author: Adriaan E. Basson - 2014-07-24


Report on Policy Meeting on HIV Drug Resistance, 6 May 2014, Lusaka, Zambia

Author: Jose IJedema, Sonia Boender & Tobias Rinke de Wit on behalf of PASER - 2014-07-05


Wellcome Trust Africa Centre Seminar & Twitter Q&A on HIV drug resistance in Africa, 15-Jan-2014

Author: Tulio de Oliveira - 2014-01-16


Multi-step inhibition explains HIV-1 protease inhibitor pharmacodynamics and resistance

Author: Jennifer Giandhari - 2013-10-10


Simultaneous detection of major HIV-1 drug resistance mutations using a multiplex allele-specific assay

Author: Anna Salimo - 2013-09-25


15 minutes, All blogs...

Videos Videos Descriptions

YouTube Video

Completion of a world-class genomics lab at Africa Centre/UKZN, Durban, South Africa - Part III

Author: Prevashinee Padayachee and Tulio de Oliveira - Date: 2014-08-06

This short video diary is the third in a series that traced the creation of a world class DNA genomic facility in the African continent that focuses on research on diseases that affect human health. This video shows the completion of genomics centre. It shows Illumina Miseq and Life Technologies Next Generation (NextGen) sequencing Facilities used in HIV & TB research.


YouTube Video

WTAC & UKZN Genomics Laboratory Construction - Video Diary Part II

Author: Prevashinee Padayachee - Date: 2014-04-05

This short video diary is the second in a series of movies that will trace the transformation of our existing laboratory into a world class DNA genomic facility. The second video provides an introduction to the robotics system and present our new bioinformatics facility. The genomics facility is based at the College of Health Sciences, University of KwaZulu-Natal and funded by the Wellcome Trust Africa Centre, South Africa MRC, UKZN, NRF and BMGF. This will be one of the first facilities in the African continent that focuses on research on diseases that affect human health.


YouTube Video

WTAC & UKZN Genomics Laboratory Construction - Video Diary Part I

Author: Prevashinee Padayachee - Date: 2014-03-13

This short video diary is the first in a series of four weekly movies that will trace the transformation of our existing laboratory into a world class DNA genomic facility. This will be one of the first facilities in the African continent that focuses on research on diseases that affect human health. The first video provides an introduction to the series, a pictorial tour of the current facilities and outlines the exciting renovation plans that are under way. The genomics facility is based at the College of Health Sciences, University of KwaZulu-Natal and funded by the Wellcome Trust Africa Centre, South Africa MRC, UKZN, NRF and BMGF


YouTube Video

HIV-1 Drug Resistance in Children in rural South Africa

Author: Siva Danaviah - Date: 2014-03-01

In a short interview, Dr. Siva Danaviah describes drug resistance patterns in HIV-infected children on antiretroviral therapy (ART) and its impact to inform public health policies in high prevalence settings. The aim of this study was to characterise the acquired drug resistance in HIV-infected children failing first-line ART in a decentralised rural HIV program in South Africa


YouTube Video

Justen Manasa PhD thesis summary

Author: Justen Manasa - Date: 2013-11-29

This is a 8 minutes video that summarizes the PhD thesis of Justen Manasa. This video cover the affordable and open accessible SATuRN/Life Tech genotyping method, SATuRN data curation process using RegaDB and a number of manuscripts on transmitted and acquired resistance in rural South Africa.


15 minutes, All videos...
Open access reports on HIV & TB drug resistance and bioinformatics in Africa HIV & TB Drug Resistance Clinical Cases Tutorial

SATuRN Collaborates on a Successful Molecular Diagnostics in HIV/AIDS and Tuberculosis in Zimbabwe, 6-9 Aug 2013

SATuRN 2013 report, date: 2013-08-21

Justen Manasa

SATuRN and Khethimpilo HIV Drug Resistance and Clinical Management Workshop Report, Durban, 11-12 July 2013

SATuRN 2013 report, date: 2013-08-01

Dean Solomon and Tulio de Oliveira

Major data analysis determines the trends of HIV-1 drug resistance mutations in South Africa.

SATuRN report 2013, date: 2013-07-01

Tulio de Oliveira

Transferring knowledge and skills to frontline medical personnel fighting the HIV & TB epidemics in rural South Africa

SATuRN 2013 report, date: 2013-03-16

Tulio de Oliveira, Justen Manasa, Richard Lessells

Bioafrica.net & SATuRN webpages received 186,746 visits in the past 12 months!

SATuRN 2013 report, date: 2013-02-26

Tulio de Oliveira

Clinical Case Study: The Diagnosis and Management of First-line Antiretroviral Treatment Failure

SATuRN 2012 report, date: 2013-01-16

Theresa Rossouw, Tulio de Oliveira & Richard Lessells

2nd Nurses and Health Care Workers Drug Resistance Training for the scale-up of resistance testing in the Free State Province, South Africa

SATuRN 2012 report, date: 2012-07-10

Dominique Goedhals & Cloete van Vuuren

SATuRN output, 15 minutes, All reports...

SATuRN output, 15 minutes, All cases...


Page design updated by Tulio de Oliveira, 2011