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The relationship between capillary threshold pressure of seal formations and buoyancy of hydrocarbons is considered as one of the most important aspects for petroleum exploration (Sales, 1997; Nakayama and Sato, 2002). As high quality 3D seismic data is acquired in common, high resolution 3D basin simulation of capillary-dominated, multi-phase flow regimes is the effective technique to realize the generation, migration and accumulation of hydrocarbons in basin scale. This paper presents the case study of<br>3D basin simulation in the North Malay Basin which was carried out by JGI and CPOC in 2007.