There are few studies investigating the panoramic associations between common and rare genetic variants and environmental risk factors and risk of major chronic diseases. Our project aims to identify the cause of the whole genome (including common and rare variants) and exposome for incident chronic diseases and explore gene-environment interaction. Previous genome-wide association studies have identified many common genetic variants of chronic diseases, such as cancer, cardiovascular disease, and type 2 diabetes. However, the rare variants identified by whole-exome sequencing are very limited. Combined with common and rare variants of major chronic disease, an aggregated polygenic risk score will be constructed to indicate the contribution to the disease. Furthermore, exposome-wide association analysis will be used to explore the network of environmental risk factors for major chronic diseases, then we will examine the interaction between various risk factors and common and rare genetic variants in relation to chronic diseases. Understanding genetic predisposition to disease and knowledge of behavioral modifications is necessary for the public to make informed choices. To investigate the associations between the genetic and environmental factors in relation to major chronic diseases is of great importance for public health. The risk assessment tool for major chronic diseases based on the combination of genetics and environmental risk factors can provide decision-making support for precise and individualized intervention.