Browsing South African National Bioinformatics Institute (SANBI) by Issue Date
Now showing items 41-60 of 132
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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 ... -
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 ... -
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 ... -
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 ... -
Virome assembly and annotation: A surprise in the Namib Desert
(Frontiers Research Foundation, 2017)Sequencing, assembly, and annotation of environmental virome samples is challenging. Methodological biases and differences in species abundance result in fragmentary read coverage; sequence reconstruction is further ... -
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 ... -
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 ... -
Human Leukocyte Antigen-A, B, C, DRB1, and DQB1 Allele and Haplotype Frequencies in a subset of 237 donors in the South African Bone Marrow Registry
(Hindawi, 2018)Human leukocyte antigen- (HLA-) A, HLA-B, HLA-C, HLA-DRB1, and HLA-DQB1 allele and haplotype frequencies were studied in a subset of 237 volunteer bone marrow donors registered at the South African Bone Marrow Registry ... -
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 ... -
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 ... -
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 ... -
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 ... -
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 ... -
Exome sequencing identifies novel dysferlin mutation in a family with pauci-symptomatic heterozygous carriers
(Springer Nature, 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 ... -
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 ... -
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 ... -
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 ... -
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 ...