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A heavy-duty diesel engine (ETH-LAV single cylinder MTU396 heavy duty research engine) was simulated by RANS and advanced reacting flow models to gain insight into its soot and NOx emissions. Due to symmetry, a section of the engine containing a single injector-hole was simulated. Dodecane was used as a surrogate to emulate the evaporation properties of diesel and a 22-step reaction mechanism for n-heptane was used to describe combustion. The Conditional Moment Closure (CMC) method was used as the combustion model in two ways. In a more conventional modelling approach, CMC was fully interfaced with the CFD and a two-equation model was employed for determining soot while the extended Zeldovich mechanism was used for NOx. In a second approach called the Imperfectly Stirred Reactor (ISR) method, the CMC equation was integrated over space and the previous RANS-CMC solution was further analysed in a post-processing step with the focus on soot.