DATA AVAILABILITY : SNP array genotype data of modern-day African populations and whole-genome data of aDNA individuals generated in this project were made available through the European Genome-Phenome Archive (EGA) data repository (EGA accessory nos. EGAS50000000006 and EGAS00001007519 for modern and aDNA, respectively). Controlled-access policies guided by participant consent agreements will be implemented by the AfricanNeo Data Access Committee (AfricanNeo DAC accessory no. EGAC00001003398). Authorized NIH DAC granted data access to C.M.S. for the controlled-access genetic data deposited in the NIH dbGAP repository (accession code phs001396.v1.p1 and project ID 19895). C.M.S. was granted data access to whole-genome sequencing data deposed by the H3Africa Consortium (EGA dataset accessory nos. EGAD00001004220, EGAD00001004316, EGAD00001004334, EGAD00001004393, EGAD00001004448, EGAD00001004505, EGAD00001004533, EGAD00001004557 and EGAD00001005076). Interactive map-based visualizations were created using the Python library bokeh v.3.0.0 and maps were provided by CartoDB (CARTO 2023), other base maps were provided by GoogleMaps (Google 2023) or created using Python libraries (plotly v.5.17.0 and shapely v.1.8.4); R packages (rworldmap v.1.3.6, plotmaps v.1.0, rEEMSplots and rEEMSplots2); and one inhouse vector map in MapInfo interchange format based on the WGS-84 projection.
CODE AVAILABILITY : Code and interactive plots used for plotting are available in two online repositories (GitHub https://github.com/Schlebusch-lab/Expansion_of_BSP_peer-reviewed_article and figshare https://doi.org/10.6084/m9.figshare.24107718).
SUPPLEMENTARY INFORMATION. Supplementary Methods, Notes 1–12, Figures 1–107, and references.
SUPPLEMENTARY TABLES. Supplementary Tables 1–15.