Browsing Philosophiae Doctor - PhD (Bioinformatics) by Issue Date
Now showing items 1-20 of 41
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Generation of a human gene index and its application to disease candidacy
(University of the Western Cape, 2001)With easy access to technology to generate expressed sequence tags (ESTs), several groups have sequenced from thousands to several thousands of ESTs. These ESTs benefit from consolidation and organization to deliver ... -
Detection of positive selection resulting from Nevirapine treatment in longitudinal HIV-1 reverse transcriptase sequences
(University of the Western Cape, 2006)Nevirapine (NVP) is a cheap anti-retroviral drug used in poor countries worldwide, administered to pregnant women at the onset of labour to inhibit HIV enzyme reverse transcriptase. Viruses which may get transmitted to ... -
Development and implementation of ontology-based systems for mammalian gene expression profiling
(2009)The use of ontologies in the mapping of gene expression events provides an effective and comparable method to determine the expression profile of an entire genome across a large collection of experiments derived from ... -
Concept Based Knowledge Discovery from Biomedical Literature
(University of the Western Cape, 2009)This thesis describes and introduces novel methods for knowledge discovery and presents a software system that is able to extract information from biomedical literature, review interesting connections between various ... -
Computational analyses on transcriptional regulation in mammals
(University of the Western Cape, 2009)The genomes of various organisms have been sequenced and their transcriptome elucidated. With the information about genes and gene products readily available it has become of the utmost importance to decipher the underlying ... -
"Development and implementation of ontology-based systems for mammalian gene expression profiling"
(University of the Western Cape, 2009)The use of ontologies in the mapping of gene expression events provides an effective and comparable method to determine the expression profile of an entire genome across a large collection of experiments derived from ... -
Concept Based Knowledge Discovery From Biomedical Literature
(University of the Western Cape, 2009)Advancement in biomedical research and continuous growth of scientific literature available in electronic form, calls for innovative methods and tools for information management, knowledge discovery, and data integration. ... -
Development of a hepatitis C virus knowledgebase with computational prediction of functional hypothesis of therapeutic relevance
(2011)To ameliorate Hepatitis C Virus (HCV) therapeutic and diagnostic challenges requires robust intervention strategies, including approaches that leverage the plethora of rich data published in biomedical literature to gain ... -
Development of a Hepatitis C Virus knowledgebase with computational prediction of functional hypothesis of therapeutic relevance
(University of the Western Cape, 2011)To ameliorate Hepatitis C Virus (HCV) therapeutic and diagnostic challenges requires robust intervention strategies, including approaches that leverage the plethora of rich data published in biomedical literature to gain ... -
Development of a comprehensive annotation and curation framework for analysis of Glossina Morsitans Morsitans expresses sequence tags
(University of the Western Cape, 2011)This study has successfully identified transcripts differentially expressed in the salivary gland and midgut and provides candidate genes that are critical to response to parasite invasion. Furthermore, an open-source ... -
Prediction of antimicrobial peptides using hyperparameter optimized support vector machines
(University of the Western Cape, 2011)Antimicrobial peptides (AMPs) play a key role in the innate immune response. They can be ubiquitously found in a wide range of eukaryotes including mammals, amphibians, insects, plants, and protozoa. In lower organisms, ... -
Modulation of soybean and maize antioxidant activities by Caffeic acid and nitric oxide under salt stress
(University of the Western Cape, 2012)This study explores the roles of exogenously applied nitric oxide, exogenously applied caffeic acid and salt stress on the antioxidant system in cereal (exemplified by maize) and legume (using soybean as an example) plants ... -
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 ... -
Identification and characterization of microRNAs and their putative target genes in Anopheles funestus s.s
(2013)The discovery of microRNAs (miRNAs) is one of the most exciting scientific breakthroughs in the last decade. miRNAs are short RNA molecules that do not encode proteins but instead, regulate gene expression. Over the past ... -
Computational characterization of IRE-regulated genes in Glossina morsitans
(University of Western Cape, 2013)Blood feeding is a habit exhibited by many insects. Considering the devastating impact of these insects on human health, it is important to focus research on understanding the biology behind blood-feeding, disease ... -
Computational characterisation of DNA methylomes in mycobacterium tuberculosis Beijing hyper- and hypo-virulent strains
(University of the Western Cape, 2014)Mycobacterium tuberculosis, the causative agent of tuberculosis, is estimated to infect approximately one-third of the world’s population and is responsible for around 2 million deaths per year. The disease is endemic in ... -
Genome-wide annotation of chemosensory and glutamate-gated receptors, and related genes in Glossina morsitans morsitans tsetse fly
(University of the Western Cape, 2014)Tsetse flies are the sole vectors of trypanosomes that cause nagana and sleeping sickness in animals and humans respectively in tropical Africa. Tsetse are unique: both sexes adults are exclusive blood-feeders, females are ... -
Evolution of HIV-1 subtype C gp120 envelope sequences in the female genital tract and blood plasma during acute and chronic infection
(University of the Western Cape, 2014)Heterosexual transmission of HIV-1 via the female genital tract is the leading route of HIV infection in sub-Saharan Africa. Viruses then traffic between the cervical compartment and blood ensuring pervasive infection. ... -
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 ... -
Genomic and proteornic analysis of drought tolerance in sorghum
(University of the Western Cape, 2014)Drought is the most complex phenomenon that remained to be a potential and historic challenge to human welfare. It affects plant productivity by eliciting perturbations related to a pathway that controls a normal, functionally ...
