<p dir="ltr">Archaeological site data is about prehistoric archaeological sites in the Pan-Pearl River Delta, involving the longitude and latitude coordinates of the sites as well as the altitude of some sites. These data can be used to confirm the precise location of the site. In addition, there are experimental analysis data of two sedimentary boreholes, including age data and biomarker data. Biomarker dataset including alkenone, n-alkane and GDGTs. These data are used to reconstruct the paleoenvironment of the Holocene in the Pan-Pearl River Delta.</p>