Browsing Faculty of Natural Sciences by Subject "Bioinformatics"
Now showing items 1-20 of 28
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Application of an in silico approach identifies a genetic locus within ITGB2, and its interactions with HSPG2 and FGF9, to be associated with anterior cruciate ligament rupture risk
(Taylor and Francis Group, 2023)We developed a Biomedical Knowledge Graph model that is phenotype and biological functionaware through integrating knowledge from multiple domains in a Neo4j, graph database. All known human genes were assessed through ... -
Application of anin silicoapproach identifies a genetic locus withinITGB2,and itsinteractions withHSPG2 and FGF9,to be associated with anterior cruciateligament rupture risk
(Taylor and Francis Group, 2023)We developed a Biomedical Knowledge Graph model that is phenotype and biological function-aware through integrating knowledge from multiple domains in a Neo4j, graph database. Allknown human genes were assessed through the ... -
Capacity building for whole genome sequencing of Mycobacterium tuberculosis and bioinformatics in high TB burden countries
(Oxford University Press, 2020)Background Whole-genome sequencing (WGS) is increasingly used for Mycobacterium tuberculosis (Mtb) research. Countries with the highest tuberculosis (TB) burden face important challenges to integrate WGS into surveillance ... -
Characterization and expression analysis of heme oxygenase genes from sorghum bicolor
(SAGE Publications, 2019)Heme oxygenases (HOs) have a major role in phytochrome chromophore biosynthesis, and chromophores in turn have antioxidant properties. Plant heme oxygenases are divided into the HO1 sub-family comprising HO1, HO3, and ... -
The combat-tb workbench: Making powerful Mycobacterium tuberculosis bioinformatics accessible
(American Society for Microbiology, 2022)Whole-genome sequencing (WGS) is a powerful method for detecting drug resistance, genetic diversity, and transmission dynamics of Mycobacterium tuberculosis. Implementation of WGS in public health microbiology laboratories ... -
Computational applications in secondary metabolite discovery (caismd): An online workshop
(BMC, 2021)We report the major conclusions of the online open-access workshop “Computational Applications in Secondary Metabolite Discovery (CAiSMD)” that took place from 08 to 10 March 2021. Invited speakers from academia and industry ... -
Computational characterization of iron metabolism in the tsetse disease vector, glossina morsitans: Ire stem-loops
(BMC, 2016)Iron metabolism and regulation is an indispensable part of species survival, most importantly for blood feeding insects. Iron regulatory proteins are central regulators of iron homeostasis, whose binding to iron response ... -
Covid-19 among adults living with HIV: Correlates of mortality among public sector healthcare users in Western Cape, South Africa
(Wiley, 2023)Introduction: While a large proportion of people with HIV (PWH) have experienced SARS-CoV-2 infections, there is uncertainty about the role of HIV disease severity on COVID-19 outcomes, especially in lower-income settings. ... -
Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics
(Springer Nature, 2018)Background: The Pan-African bioinformatics network, H3ABioNet, comprises 27 research institutions in 17 African countries. H3ABioNet is part of the Human Health and Heredity in Africa program (H3Africa), an African-led ... -
Diagnostic approaches of pneumonia for commercial-scale biomedical applications: An overview
(Taylor & Francis, 2020)Pneumonia remains the leading infectious cause of death among children under five years of age, and the elderly. Several biomarkers, which have been identified for its diagnosis lack specificity, as they could not ... -
Exploring new genetic variants within col5a1 intron 4‐exon 5 region and tgf‐β family with risk of anterior cruciate ligament ruptures
(Wiley, 2020)Variants within genes encoding structural and regulatory elements of ligaments have been associated with musculoskeletal soft tissue injury risk. The role of intron 4‐exon 5 variants within the α1 chain of type V collagen ... -
Human coronavirus OC43 3CL protease and the potential of ML188 as a broad-spectrum lead compound: Homology modelling and molecular dynamic studies
(Springer Nature, 2015)The coronavirus 3 chymotrypsin-like protease (3CLpro) is a validated target in the design of potential anticoronavirus inhibitors. The high degree of homology within the protease’s active site and substrate conservation supports ... -
Investigation of distinct gene expression profile patterns that can improve the classification of intermediate-risk prognosis in AML patients
(Frontiers Media, 2023)Acute myeloid leukemia (AML) is a heterogeneous type of blood cancer that generally affects the elderly. AML patients are categorized with favorable-, intermediate-, and adverse-risks based on an individual’s genomic ... -
Modelling human protein interaction networks as metric spaces has potential in disease research and drug target discovery
(BMC, 2014)We have recently shown by formally modelling human protein interaction networks (PINs) as metric spaces and classified proteins into zones based on their distance from the topological centre that hub proteins are primarily ... -
Opportunities in Africa for training in genome science
(Academic Journals, 2004)Genome science is a new type of biology that unites genetics, molecular biology, computational biology and bioinformatics. The availability of the human genome sequence, as well as the genome sequences of several other ... -
Predicting amplification of mycn using cpg methylation biomarkers in neuroblastoma
(Future Science Group, 2021)Neuroblastoma is the most common extracranial solid tumor in childhood. Amplification of MYCN in neuroblastoma is a predictor of poor prognosis. Materials and methods: DNA methylation data from the TARGET data matrix were ... -
Prediction of human-Bacillus anthracis protein–protein interactions using multi-layer neural network
(Oxford University Press, 2018)Triplet amino acids have successfully been included in feature selection to predict human-HPV protein-protein interactions (PPI). The utility of supervised learning methods is curtailed due to experimental data not being ... -
Protein profiling in unlocking the basis of varicocele-associated infertility
(Blackwell Publishing Ltd, 2021)Varicocele is one of the major causes of male infertility and has a negative impact on spermatogenesis. The conventional semen analysis does not reveal the underlying subcellular mechanisms associated with defects in ... -
Proteomic identification and meta-analysis in salvia hispanica RNA-seq de novo assemblies
(2021)While proteomics has demonstrated its value for model organisms and for organisms with mature genome sequence annotations, proteomics has been of less value in nonmodel organisms that are unaccompanied by genome sequence ... -
Record linkage for routinely collected health data in an African health information exchange
(Swansea University, 2023)The Patient Master Index (PMI) plays an important role in management of patient information and epidemiological research, and the availability of unique patient identifiers improves the accuracy when linking patient ...