This workshop will introduce an interdisciplinary audience to the potential of GWAS and to key strategic considerations in designing and performing gene-mapping studies using SNP markers from various arrays and Next Generation Sequencing (NGS) technology platforms. The overall goal is to prepare for H3ABioNet node accreditation and to bridge the skills and knowledge gaps in this field among research scientists. Furthermore, the workshop will aim to create and advance trainers in GWAS through the Knowledge Transfer Programme. The workshop will cover fundamental assumptions, showcase recent successes and discuss limitations of current GWAS approaches in the field of complex diseases, particularly in the case of African populations with known low linkage disequilibrium (LD). It will also provide a ‘hands-on’ experience of data analysis and a stage for shaping the next generation of GWAS scientists/researchers by drawing on the audience’s interdisciplinary expertise in e.g. statistics and machine learning to overcome present challenges and identify the most promising avenues of future research to effectively associate phenotype –genotype association.