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)

Mutational Correlates of Virological Failure in Individuals Receiving a WHO-Recommended Tenofovir-Containing First-Line Regimen: An International Collaboration.
Rhee SY, Varghese V, Holmes SP, Van Zyl GU, Steegen K, Boyd MA, Cooper DA, Nsanzimana S, Saravanan S, Charpentier C, de Oliveira T, Etiebet MA, Garcia F, Goedhals D, Gomes P, Gunthard HF, Hamers RL, Hoffmann CJ, Hunt G, Jiamsakul A, Kaleebu P, Kanki P, Kantor R, Kerschberger B, Marconi VC, D'amour Ndahimana J, Ndembi N, Ngo-Giang-Huong N, Rokx C, Santoro MM, Schapiro JM, Schmidt D, Seu L, Sigaloff KCE, Sirivichayakul S, Skhosana L, Sunpath H, Tang M, Yang C, Carmona S, Gupta RK, Shafer RW., EBioMedicine (2017), :doi: 10.1016/j.ebiom.2017.03.024.

High Rates of Transmission of Drug-resistant HIV in Aruba Resulting in Reduced Susceptibility to the WHO Recommended First-line Regimen in Nearly Half of Newly Diagnosed HIV-infected Patients.
Hofstra LM, Rivas ES, Nijhuis M, Bank LEA, Wilkinson E, Kelly K, Mudrikova T, Schuurman R, de Oliveira T, de Kort J, Wensing AMJ, Clinical Infectious Diseases (2017), :doi: 10.1093/cid/cix056.

Virological Outcomes of Second-line Protease Inhibitor-Based Treatment for Human Immunodeficiency Virus Type 1 in a High-Prevalence Rural South African Setting: A Competing-Risks Prospective Cohort Analysis.
Collier D, Iwuji C, Derache A, de Oliveira T, Okesola N, Calmy A, Dabis F, Pillay D, Gupta RK, for ANRS 12249 TasP Study Group, Clinical Infectious Diseases (2017), :doi: 10.1093/cid/cix015.

CD4+ T-cell count may not be a useful strategy to monitor antiretroviral therapy response in HTLV-1/HIV co-infected patients.
Vandormael A, Rego F, Danaviah S, Alcantara L, Boulware D, de Oliveira T, Current HIV Research (2017), :doi: 10.2174/1570162X15666170216114917.

Social disequilibrium and the risk of HIV acquisition: A multilevel study in rural KwaZulu-Natal Province, South Africa.
Tomita A, Vandormael AM, Barnighausen T, de Oliveira T, Tanser F, J Acquir Immune Defic Syndr. (2017), :10.1097/QAI.0000000000001349.

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 KRISP/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

KRISP 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

KRISP 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)

KRISP Talks

A multi-centre analysis of internal migration and AIDS/TB and NCD-related mortality in Kenya and South Africa

KRISP Talks - 2017-08-23

KRISP Talks by Dr Carren Ginsburg, SAMRC/Wits Rural Public Health & Health Transitions Research Unit (Agincourt), 23 August 2017 (11am - midday), K-RITH building, Nelson R Mandela School of Medicine, UKZN, Durban, South Africa. All welcome!


KRISP News

KRISP & SANTHE trainee wins Best Abstract at DELTAS Africa meeting

KRISP News - 2017-07-19

Friday, 7 July, 2017, Dr Marcel Tongo Passo, a SANTHE Post-doctoral trainee, has won a "Best Abstract" award at the DELTAS (Developing Excellence in Leadership, Training and Science) Africa Annual Grantees Meeting 2017, held in Accra, Ghana, between 3 to 5 July. Passo is based at KRISP (KwaZulu-Natal Research and Innovation Sequencing Platform) and HPP (HIV Pathogenesis Programme) at the University of KwaZulu-Natal, South Africa.


KRISP News

Durban at the forefront of DNA research - KwaZulu-Natal Research and Innovation Sequencing Platform - KRISP

KRISP News - 2017-07-15

By Arthi Gopi, Independent on Saturday Newspaper - KRISP atrracts the brightest - Durban is leading the way in DNA research, having attracted some of the brightest minds in the science field, in a new state-of-the-art lab in the city.


KRISP News

KwaZulu-Natal Research and Innovation Sequencing Platform (KRISP) Established

KRISP News - 2017-07-12

The Technology Innovation Agency (TIA) and UKZN have signed an agreement for the establishment of KRISP - the KwaZulu-Natal Research and Innovation Sequencing Platform.


KRISP Talks

Seminar: Can the type of jeans you wear determine your treatment response?

KRISP Talks - 2017-06-23

KRISP Talks by Professor Bonga Chiliza, Discipline of Psychiatry: College of Health Sciences, UKZN, 23 June 2017, K-RITH building, Nelson R Mandela School of Medicine, Durban, South Africa. All welcome!


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