South African National Bioinformatics Institute (SANBI): Recent submissions
Now showing items 21-40 of 84
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Management and analysis of HIV -1 ultra-deep sequence data
(University of the Western Cape, 2014)The continued success of antiretroviral programmes in the treatment of HIV is dependent on access to a cost-effective HIV drug resistance test (HIV-DRT). HIVDRT involves sequencing a fragment of the HIV genome and ... -
Irradiation induced effects on 6h-SIC
(University of the Western Cape, 2012)The framework agreement in the year 2000 by the international community to launch Generation IV program with 10 nations, to develop safe and reliable nuclear reactors gave rise to the increased interest in the studies of ... -
Molecular dynamic simulation studies of the South African HIV-1 Integrase subtype C protein to understand the structural impact of naturally occurring polymorphisms
(University of the Western Cape, 2021)The viral Integrase (IN) protein is an essential enzyme of all known retroviruses, including HIV-1. It is responsible for the insertion of viral DNA into the human genome. It is known that HIV-1 is highly diverse with a ... -
Molecular dynamic simulation studies of the South African HIV-1 Integrase subtype C protein to understand the structural impact of naturally occurring polymorphisms
(University of Western Cape, 2021)The viral Integrase (IN) protein is an essential enzyme of all known retroviruses, including HIV-1. It is responsible for the insertion of viral DNA into the human genome. It is known that HIV-1 is highly diverse with a ... -
Coding of tsetse repellents by olfactory sensory neurons: towards the improvement and the development of novel tsetse repellents
(University of the Western Cape, 2020)Tsetse flies are the biological vectors of human and animal trypanosomiasis and hence representant medical and veterinary importance. The sense of smell plays a significant role in tsetse and its ecological interaction, ... -
Coding of tsetse repellents by olfactory sensory neurons: towards the improvement and the development of novel
(University of the Western Cape, 2020)Tsetse flies are the biological vectors of human and animal trypanosomiasis and hence representant medical and veterinary importance. The sense of smell plays a significant role in tsetse and its ecological interaction, ... -
Investigating the structural effect of Raltegravir resistance associated mutations on the South African HIV-1 Integrase subtype C protein structure
(University of the Western Cape, 2020)Background and Aims Human Immunodeficiency Virus (HIV) type 1 group M subtype C (HIV-1C) accounts for nearly half of global HIV-1 infections, with South Africa (SA) being one of the countries with the highest infection ... -
Exploring the influence of organisational, environmental, and technological factors on information security policies and compliance at South African higher education institutions: Implications for biomedical research.
(University of the Western Cape, 2020)Headline reports on data breaches worldwide have resulted in heightened concerns about information security vulnerability. In Africa, South Africa is ranked among the top ‘at-risk’ countries with information security ... -
Exploring the influence of organisational, environmental, and technological factors on information security policies and compliance at South African higher education institutions: Implications for biomedical research.
(University of Western Cape, 2020)Headline reports on data breaches worldwide have resulted in heightened concerns about information security vulnerability. In Africa, South Africa is ranked among the top ‘at-risk’ countries with information security ... -
Coding of tsetse repellents by olfactory sensory neurons: towards the improvement and the development of novel tsetse repellents
(University of Western Cape, 2021)Tsetse flies are the biological vectors of human and animal trypanosomiasis and hence representant medical and veterinary importance. The sense of smell plays a significant role in tsetse and its ecological interaction, ... -
Optimisation of proteomics techniques for archival tumour blocks of a South African cohort of colorectal cancer
(University of Western Cape, 2020)Tumour-specific protein markers are usually present at elevated concentrations in patient biopsy tissue; therefore tumour tissue is an ideal biological material for studying cancer proteomics and biomarker discovery studies. ... -
Establishing a framework for an African Genome Archive
(University of Western Cape, 2019)The generation of biomedical research data on the African continent is growing, with numerous studies realizing the importance of African genetic diversity in discoveries of human origins and disease susceptibility. The ... -
Data Science techniques for predicting plant genes involved in secondary metabolites production
(University of the Western Cape, 2018)Plant genome analysis is currently experiencing a boost due to reduced costs associated with the development of next generation sequencing technologies. Knowledge on genetic background can be applied to guide targeted ... -
Observations on the ecology and life-history of Chrysaora fulgida (Reynaud 1830) (Scyphozoa: Semaeostomeae) and other pelagic cnidarians in the inshore waters off central Namibia
(University of the Western Cape, 2019)Although jellyfish are recognised recently as key components that can influence ecosystem functioning and trophic flows in the northern Benguela upwelling ecosystem, the number of published studies on their abundance, ... -
Baobab LIMS: An open source biobank laboratory information management system for resource-limited settings
(University of the Western Cape, 2019)A laboratory information management system (LIMS) is central to the informatics infrastructure that underlies biobanking activities. To date, a wide range of commercial and open source LIMS are available. The decision ... -
Development of a simple artificial intelligence method to accurately subtype breast cancers based on gene expression barcodes
(University of the Western Cape, 2018)INTRODUCTION: Breast cancer is a highly heterogeneous disease. The complexity of achieving an accurate diagnosis and an effective treatment regimen lies within this heterogeneity. Subtypes of the disease are not simply ... -
Enabling the processing of bioinformatics workflows where data is located through the use of cloud and container technologies
(University of the Western Cape, 2019)The growing size of raw data and the lack of internet communication technology to keep up with that growth is introducing unique challenges to academic researchers. This is especially true for those residing in rural ... -
An evaluation of galaxy and ruffus-scripting workflows system for DNA-seq analysis
(University of the Western Cape, 2018)Functional genomics determines the biological functions of genes on a global scale by using large volumes of data obtained through techniques including next-generation sequencing (NGS). The application of NGS in biomedical ... -
Exploring the role of the “glycan-shield” of human immunodeficiency virus in susceptibility to, and escape from, broadly neutralising antibodies
(University of the Western Cape, 2018)The HIV-1 envelope (Env) glycoprotein is the primary target of the humoral immune response and a critical vaccine candidate. However, Env is densely glycosylated and thereby substantially protected from neutralisation. ... -
Development of a data processing toolkit for the analysis of next-generation sequencing data generated using the primer ID approach
(University of the Western Cape, 2018)Sequencing an HIV quasispecies with next generation sequencing technologies yields a dataset with significant amplification bias and errors resulting from both the PCR and sequencing steps. Both the amplification bias ...