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The control of Homogeneous Charge Compression Ignition (HCCI) (also known as Controlled Auto Ignition (CAI)) has been a major research topic recently, since this type of combustion has the potential to be highly efficient and to produce low NOx and particulate matter emissions. Ion current has proven itself as a closed loop control feedback for SI engines. Based on previous work by the authors, ion current was acquired through HCCI operation too, with promising results. However, for best utilization of this feedback signal, advanced interpretation techniques such as artificial neural networks can be used. In this paper the use of these advanced techniques on experimental data is explored and discussed. The experiments are performed on a single cylinder cam-less (equipped with a Fully Variable Valve Timing (FVVT) system) research engine fueled with commercially available gasoline (95 ON).