GENOMICS LABORATORY

The Genomics Facility at Nelson R Mandela School of Medicine, University of KwaZulu-Natal, UKZN, Durban, South Africa has one of the world’s most advanced genetic sequencing systems in order to enable and support world-class genomics research in Africa. Our objective is to use NextGen sequencing and bioinformatics to answer scientific questions that are of local, national and international importance.


Genomics Facility:
Information:

Nelson R Mandela School of Medicine Campus in Durban, South Africa, is where our Genomics Facility is based.


Open access pdf Publications (latest 5)

Sequence and Phylogenetic Analysis of the Untranslated Promoter Regions for HLA Class I Genes.
Ramsuran V, Hernandez-Sanchez PG, O'hUigin C, Sharma G, Spence N, Augusto DG, Gao X, Garcia-Sepulveda CA, Kaur G, Mehra NK, Carrington M,, J Immunol (2017), pii: 1601679:.

Primary HIV-1 Drug Resistant Minority Variants.
Chimukangara B, Samuel R, Naidoo K, de Oliveira T, AIDS Reviews (2017), 19(2):[Epub ahead of print].

Pairwise diversity and tMRCA as potential markers for HIV infection recency.
Moyo S, Wilkinson E, Vandormael A, Wang R, Weng J, Kotokwe KP, Gaseitsiwe S, Musonda R, Makhema J, Essex M, Engelbrecht S, de Oliveira T, Novitsky V , Medicine (Baltimore) (2017), 96:doi: 10.1097/MD.0000000000006041.

Sensitive next generation sequencing method reveals deep genetic diversity of HIV-1 in the Democratic Republic of the Congo.
Rodgers MA, Wilkerson E, Vallari A, McArthur C, Sthreshley L, Brennan CA, Cloherty G, de Oliveira T, Journal of Virology (2017), JVI.01841-16:doi: 10.1128/JVI.01841-16.

Complex subtype diversity of HIV-1 among drug users in major Kenyan cities.
Gounder K, Oyaro M, Padayachi N, Zulu TM,de Oliveira T, Wylie J, Ndung'u T, AIDS Res Hum Retroviruses (2017), :10.1089/AID.2016.0321.

All publications - Bioinformatics, genomics and drug resistance peer-reviewed papers on HIV, TB and other pathogens
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Videos Videos Descriptions

YouTube Video

Transmission networks and risk of HIV infection in KwaZulu-Natal, South Africa: a community-wide phylogenetic study - Keynote presentation at AIDS 2016.

Author: Anthony Fauci, Quarraisha Abdool Karim, David Khanyile, Tulio de Oliveira, Salim Abdool Karim - Date: 2016-06-20

This is a short video of our keynote presentation at the AIDS 2016 conference in Durban.


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 and Tulio de Oliveira - 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 and Tulio de Oliveira - 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


15 minutes, All videos...
News News Section, printed & online media on our work on genomics and bioinformatics (latest 5)

UKZN & MRC Flagship

Seminar: Differential HLA-A Expression Levels and the Effect on HIV

UKZN & MRC Flagship - 2017-01-27

We cordially invites you to a seminar presented by Dr Veron Ramsuran, Senior Lecturer: College of Health Sciences, UKZN, 27 January 2017, K-RITH building, Nelson R Mandela School of Medicine, Durban, South Africa


BioAfrica & SATuRN

Newsletter, Dec 2016: Ethics & phylogenetics, HIV transmission cycle, UNAIDS Report, Drug resistance increases in Africa

BioAfrica & SATuRN - 2016-12-15

The concept behind this newsletter is that anyone with 15 minutes to spare can learn about our research work. In this December 2016 issue of our newsletter, we have included interesting news, blogs, reports, tweets, publications and training information produced by our group.


Nelson Mandela School of Medicine, UKZN

Ethics and Viral Genomics: An Exploration of Ethical Issues Associated with HIV Phylogenetics

Nelson Mandela School of Medicine, UKZN - 2016-12-09

This is a half-day interactive workshop, which seeks to explore and deliberate on key ethical issues associated with HIV phylogenetic analysis as applied in our understanding of HIV transmission dynamics, particularly in African settings. Keynote presentations will be followed by plenary discussions led by the speakers.


The Lancet Infectious Diseases

Time to get serious with HIV-1 resistance in sub-Saharan Africa

The Lancet Infectious Diseases - 2016-12-02

In The Lancet Infectious Diseases, John Gregson and colleagues report the results of a meta-analysis investigating HIV-1 drug resistance in 20 studies from sub-Saharan Africa.


Mercury

Unrelenting spread of HIV amongst Adolescent girls and young women in rural and urban KwaZulu-Natal

Mercury - 2016-12-01

By Professor Ayesha Kharsany, December 1, 2016, Durban - Globally, over 1.6 billion people are in the age group 12-24 years, the largest generation of adolescents and young people. However, almost 42% of new HIV infections occur in this age group, nearly 80% of these live in sub-Saharan Africa and more than 70% of these infections occur in adolescent girls and young women. Not only do these adolescent girls and young women have higher rates of HIV, they also acquire infection 5-7 years earlier than their male peers.


All news...
Blogs on genomics annd bioinformatics Twitter

Megan Druce: from Cum Laude MSc to a Scholarship for a PhD in Germany...

Author: Megan Druce - 2016-04-18


Sthembiso Msweli: from Hlabisa to MSc and Further Promoted to Laboratory Manager...

Author: Sthembiso Msweli - 2016-04-17


Experience of 3 UKZN/Africa Centre students at the 7-week national bioinformatics workshop 2015

Author: Megan Druce, Zandile Sibisi & Sthembiso Msweli - 2015-04-23


Tale of 4 Cities in outlining researcher's strive towards a cure for HIV

Author: Siva Danaviah - 2014-10-14


Massive Open Online Courses: Huge potential for bioinformatics education

Author: Rachael Dellar - 2014-10-13


15 minutes, All blogs...


Page design updated by Tulio de Oliveira, 2015