Browsing South African National Bioinformatics Institute (SANBI) by Title
Now showing items 95-114 of 132
-
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 ... -
Predictive classifier models built from natural products with antimalarial bioactivity using machine learning approach
(Public Library of Science, 2018)In view of the vast number of natural products with potential antiplasmodial bioactivity and cost of conducting antiplasmodial bioactivity assays, it may be judicious to learn from previous antiplasmodial bioassays and ... -
Prioritization of anti-malarial hits from nature: Chemo-informatic profiling of natural products with in vitro antiplasmodial activities and currently registered anti-malarial drugs
(BMC, 2016)A large number of natural products have shown in vitro antiplasmodial activities. Early identification and prioritization of these natural products with potential for novel mechanism of action, desirable pharmacokinetics ... -
Prioritization of candidate genes for a South African family with Parkinson’s disease using in-silico tools
(Public Library of Science, 2021)Parkinson's disease (PD) is a neurodegenerative disorder exhibiting Mendelian inheritance in some families. Next-generation sequencing approaches, including whole exome sequencing (WES), have revolutionized the field of ... -
Proteomics analysis of the p.G849D variant in neurexin 2 alpha may reveal insight into Parkinson’s disease pathobiology
(Frontiers, 2022)Parkinson’s disease (PD), the fastest-growing neurological disorder globally, has a complex etiology. A previous study by our group identified the p.G849D variant in neurexin 2 (NRXN2), encoding the synaptic protein, ... -
RAMICS: Trainable, high-speed and biologically relevant alignment of high-throughput sequencing reads to coding DNA
(Oxford University Press, 2014)The challenge presented by high-throughput sequencing necessitates the development of novel tools for accurate alignment of reads to reference sequences. Current approaches focus on using heuristics to map reads quickly ... -
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 ... -
Repurposing based identification of novel inhibitors against mmps5-mmpl5 efflux pump of Mycobacterium smegmatis: A combined in silico and in vitro study
(MDPI, 2022)In the current era of a pandemic, infections of COVID-19 and Tuberculosis (TB) enhance the detrimental effects of both diseases in suffering individuals. The resistance mechanisms evolving in Mycobacterium tuberculosis ... -
Role of Indigenous and local knowledge in seasonal forecasts and climate adaptation: A case study of smallholder farmers in Chiredzi, Zimbabwe
(Elsevier, 2023)Accessible, reliable and diverse sources of climate information are needed to inform climate change adaptation at all levels of society, particularly for vulnerable sectors such as smallholder farming. Globally, many ... -
Selecting an appropriate method for expressing S locus F-box-S2 recombinant protein
(Elsevier, 2017)A single locus (S locus) including at least two linked genes (female and male determinants) genetically controls the gametophytic self-incompatibility (GSI) in apple, which has evolved to avoid self-fertilization. There ... -
Selection analysis identifies clusters of unusual mutational changes in omicron lineage ba.1 that likely impact spike function
(Oxford University Press, 2022)Among the 30 nonsynonymous nucleotide substitutions in the Omicron S-gene are 13 that have only rarely been seen in other SARS-CoV-2 sequences. These mutations cluster within three functionally important regions of the ... -
Self-similarity of human protein interaction networks: a novel strategy of distinguishing proteins
(2015)The successful determination of reliable protein interaction networks (PINs) in several species in the post-genomic era has hitherto facilitated the quest to understanding systems and structural properties of such networks. ... -
Semantic interrogation of a multi knowledge domain ontological model of tendinopathy identifies four strong candidate risk genes
(Nature Research, 2016)Tendinopathy is a multifactorial syndrome characterised by tendon pain and thickening, and impaired performance during activity. Candidate gene association studies have identified genetic factors that contribute to ... -
Structural and molecular docking analytical studies of the predicted ligand binding sites of cadherin-1 in cancer prognostics
(Dove Medical Press, 2020)Several studies have explored the design of antimicrobial peptides (AMPs) for the development of therapeutic and diagnostic molecules for the treatment and identification of pathogenic diseases as well as cancer. Human ... -
Structural comparison of diverse HIV-1 subtypes using molecular modelling and docking analyses of integrase inhibitors
(MPDI, 2020)The process of viral integration into the host genome is an essential step of the HIV-1 life cycle. The viral integrase (IN) enzyme catalyzes integration. IN is an ideal therapeutic enzyme targeted by several drugs; ... -
Structural rearrangements maintain the Glycan Shield of an HIV-1 envelope trimer after the loss of a glycan
(Nature Research, 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. ... -
Structure based identification of novel inhibitors against ATP synthase of Mycobacterium tuberculosis: A combined in silico and in vitro study
(International Journal of Biological Macromolecules, 2019)The shortcomings of conventional tuberculosis treatments resulting from the development of drug resistance in Mycobacteriumtuberculosis drive a need for the formulation of novel therapeutic agents. The diarylquinoline ... -
Symptom evolution following the emergence of maize streak virus
(eLife Sciences Publications, 2020)For pathogens infecting single host species evolutionary trade-offs have previously been demonstrated between pathogen-induced mortality rates and transmission rates. It remains unclear, however, how such trade-offs ... -
Synthesis of oxygen deficient tio2 for improved photocatalytic efficiency in solar radiation
(MDPI, 2021)The photocatalytic activities of TiO2 have been limited mainly to absorbing in the ultraviolet spectrum which accounts for only 5% of solar radiation. High energy band gap and electron recombination in TiO2 nanoparticles ...