The systematical associations between stroke and coronary heart disease (CHD) remain controversial and
uncertain. Network construction and modularized analysis have become powerful tools in the field of systems biology
research, which can help us to mine the multidimensional characters of correlation between the two diseases in depth. A
total of 218 stroke-related and 204 CHD-related genes were identified via the Online Mendelian Inheritance in Man
database; text searching engine (Agilent Literature Search 2.71) and MCODE software were employed for network
construction and module division, respectively. Finally, 67, 21, 7, and 196 overlapping genes, hubs, modules and modular
functions were identified between stroke and CHD, respectively. The overlapping genes, which should be responsible for
the similar phenotypes, highlighted the molecular signatures of the two linked diseases. Additionally, the analysis of
modules and their functional annotations showed potential dependent and independent risk factors, such as
atherosclerosis, cholesterol homeostasis, plasma lipoprotein particle remodeling and response to oxidative stress, etc.
Moreover, the potential mechanisms by which the same biological process activating pathological cascade or risk
component-based shared pathway between stroke and CHD were uncovered, which may provide useful insights for
further drug development and cost saving.