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This paper presents a framework for modeling a modern diesel engine and its aftertreatment system which are intended to be used for real-time implementation as a virtual engine and in a model-based control architecture to predict critical variables such as fuel consumption and tailpipe emissions. The models are specifically able to capture the impact of critical control variables such as the Exhaust Gas Recirculation (EGR) valve position and fuel injection timing, as well as operating conditions of speed and torque, on the engine airpath variables and emissions during transient driving conditions. To enable real-time computation of the models, a minimal realization of the nonlinear airpath model is presented and it is coupled with a cycle averaged NOx emissions predictor to estimate feed gas NOx emissions. Then, the feedgas enthalpy is used to calculate the thermal behavior of the aftertreatment system required for prediction of tailpipe emissions.