South African National Bioinformatics Institute (SANBI): Recent submissions
Now showing items 81-100 of 132
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Castleman’s disease in the HIV-endemic setting
(Dovepress, 2018)Castleman’s disease (CD), first described by Benjamin Castleman in 1954, is a giant or angiofollicular lymph node hyperplasia, described as a rare monotypic polyclonal B-cell lymphoproliferative disorder with an incompletely ... -
The westward journey of alfalfa leaf curl virus
(MDPI, 2018)Alfalfa leaf curl virus (ALCV), which causes severe disease symptoms in alfalfa (Medicago sativa L.) and is transmitted by the widespread aphid species, Aphis craccivora Koch, has been found throughout the Mediterranean ... -
Defining the molecular signatures of Achilles tendinopathy and anterior cruciate ligament ruptures: A whole-exome sequencing approach
(Public Library of Science, 2018)Musculoskeletal soft tissue injuries are complex phenotypes with genetics being one of many proposed risk factors. Case-control association studies using the candidate gene approach have predominately been used to identify ... -
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. ... -
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 ... -
Exome sequencing identifies novel dysferlin mutation in a family with paucisymptomatic heterozygous carriers
(BioMed Central, 2018)BACKGROUND: We investigated a South African family of admixed ancestry in which the first generation (G1) developed insidious progressive distal to proximal weakness in their twenties, while their offspring (G2) experienced ... -
Hackathons as a means of accelerating scientific discoveries and knowledge transfer
(Cold Spring Harbor Laboratory Press, 2018)Scientific research plays a key role in the advancement of human knowledge and pursuit of solutions to important societal challenges. Typically, research occurs within specific institutions where data are generated and ... -
Cross-species multiple environmental stress responses: An integrated approach to identify candidate genes for multiple stress tolerance in sorghum (Sorghum bicolor (L.) Moench) and related model species
(Public Library of Science, 2018)BACKGROUND Crop response to the changing climate and unpredictable effects of global warming with adverse conditions such as drought stress has brought concerns about food security to the fore; crop yield loss is a major ... -
A 35-gene signature discriminates between rapidly- and slowly-progressing glioblastoma multiforme and predicts survival in known subtypes of the cancer
(BioMed Central, 2018)BACKGROUND: Gene expression can be employed for the discovery of prognostic gene or multigene signatures cancer. In this study, we assessed the prognostic value of a 35-gene expression signature selected by pathway ... -
Analyses of HIV-1 integrase sequences prior to South African national HIV-treatment program and available of integrase inhibitors in Cape Town, South Africa
(Nature Publishing Group, 2018)HIV-Integrase (IN) has proven to be a viable target for highly specific HIV-1 therapy. We aimed to characterize the HIV-1 IN gene in a South African context and identify resistance-associated mutations (RAMs) against ... -
Carbonic anhydrase II based biosensing of carbon dioxide at high temperature: an analytical and MD simulation study
(OMICS International, 2018)Concentration of carbon dioxide (CO2) in the atmosphere has increased significantly due to anthropogenic activities and attributed as a major factor to global warming. Its detection by biosensing methods will provide ... -
Challenges of biobanking in South Africa to facilitate indigenous research in an environment burdened with human immunodeficiency virus, tuberculosis, and emerging non-communicable diseases
(Mary Ann Liebert, Inc., 2013)The high burden of infectious diseases and the growing problem of noncommunicable and metabolic disease syndromes in South Africa (SA) forces a more focused research approach to facilitate cutting-edge scientific growth ... -
Extensive recombination detected among beak and feather disease virus isolates from breeding facilities in Poland
(Microbiology Society, 2013)Beak and feather disease virus (BFDV) causes the highly contagious, in some cases fatal, psittacine beak and feather disease in parrots. The European continent has no native parrots, yet in the past has been one of the ... -
Geometagenomics illuminates the impact of agriculture on the distribution and prevalence of plant viruses at the ecosystem scale
(Nature Publishing Group, 2018)Disease emergence events regularly result from human activities such as agriculture, which frequently brings large populations of genetically uniform hosts into contact with potential pathogens. Although viruses cause ... -
An integrated and comparative approach towards identification, characterization and functional annotation of candidate genes for drought tolerance in sorghum (Sorghum bicolor (L.) Moench)
(BioMed Central, 2017)BACKGROUND: Drought is the most disastrous abiotic stress that severely affects agricultural productivity worldwide. Understanding the biological basis of drought-regulated traits, requires identification and an in-depth ... -
Whole-genome sequencing for an enhanced understanding of genetic variation among South Africans
(Nature Publishing Group, 2017)The Southern African Human Genome Programme is a national initiative that aspires to unlock the unique genetic character of southern African populations for a better understanding of human genetic diversity. In this pilot ... -
A meta-analysis of public microarray data identifies gene regulatory pathways deregulated in peripheral blood mononuclear cells from individuals with Systemic Lupus Erythematosus compared to those without
(BioMed Central, 2017)BACKGROUND: Systemic Lupus Erythematosus (SLE) is a complex, multi-systemic, autoimmune disease for which the underlying aetiological mechanisms are poorly understood. The genetic and molecular processes underlying ... -
Designing a course model for distance-based online bioinformatics training in Africa: the H3ABioNet experience
(Public Library of Science, 2017)Africa is not unique in its need for basic bioinformatics training for individuals from a diverse range of academic backgrounds. However, particular logistical challenges in Africa, most notably access to bioinformatics ... -
Characterizing the emergence and persistence of drug resistant mutations in HIV-1 subtype C infections using 454 ultra deep pyrosequencing
(BioMed Central -The Open Access Publisher, 2013)BACKGROUND: The role of HIV-1 RNA in the emergence of resistance to antiretroviral therapies (ARTs) is well documented while less is known about the role of historical viruses stored in the proviral DNA. The primary ... -
Avihepadnavirus diversity in parrots is comparable to that found amongst all other avian species
(Elsevier, 2013)Avihepadna viruses have previously been isolated from various species of duck ,goose, stork, heron and crane. Recently the first parrot avihepadna virus was isolated from a Ring-necked Parakeet in Poland. In this study, ...