Browsing Philosophiae Doctor - PhD (Bioinformatics) by Title
Now showing items 13-32 of 40
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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 ... -
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. ... -
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 ... -
"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 ... -
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 ... -
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 ... -
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 an operon detection algorithm to analyze gene regulation in drug resistant Mycobacterium tuberculosis
(University of the Western Cape, 2022)In prokaryotes, operon structures often form to allow microorganisms to respond rapidly and efficiently to changing environmental conditions. Operons are sets of neighbouring genes which are co-regulated and co-transcribed. ... -
Discovering cancer subtypes by tracking cancer progression with transcriptomic data through the multi-stage process of cancer development.
(University of the Western Cape, 2023)Background: The development of cancer is driven by genomic alterations, which become more heterogeneous as the disease progresses throughout the stages. Consequently, cancer patients have differential levels of sensitivity ... -
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. ... -
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. ... -
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 ... -
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 ... -
Genomic epidemiology of Rift Valley fever in East Africa
(University of the Western Cape, 2023)Rift Valley fever (RVF) is a climate-driven zoonotic disease of significant importance to public and livestock health given its epidemic potential. The disease was first identified in 1930 in the great rift valley region ... -
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 ... -
Identification and ranking of pervasive secondary structures in positive sense single-stranded ribonucleic acid viral genomes
(University of the Western Cape, 2018)The plasticity of single-stranded viral genomes permits the formation of secondary structures through complementary base-pairing of their component nucleotides. Such structures have been shown to regulate a number of ... -
Identification of coding variants associated with familial systemic lupus erythematosus through whole exome sequencing
(University of the Western Cape, 2016)Systemic lupus erythematosus (SLE) is a chronic inflammatory autoimmune disease characterized by the production of a wide range of autoantibodies directed against selfantigens. SLE can influence almost any organ system and ... -
Investigating genetic diversity and microRNA of Hermetia illucens (the black soldier fly) to breed for mass production of a novel sustainable protein
(University of the Western Cape, 2023)Introduction: A new sustainable source of protein is needed to meet the demands of the growing global population. Insect meal is a suitable replacement, and the black soldier fly (BSF) is the most used insect in industrial ...