Thermally induced errors of machine tools have been recognized as one of the most important issues in precision machining. This is probably the most formidable obstacle to obtain high level of machining accuracy. To this regard, the experimental compensation methodologies such as software-based method or origin shift of machine tool axes have been suggested. In this research, to cope with thermal deformation, a model based correction was carried out with the function of an external machine coordinate shift. Models with multi-linear regression or neural network were investigated to selected a good one for thermal compensation. Consequently, multi-linear regression model combined with origin shift was verified good enough form the machining of dot matrices of plate with ball end milling.