The structure of the complex interaction affects “feeling of comfort” in foods. In the greenhouse melon is branding, “best eating”, “desire to purchase” is important in Kansei evaluation. The purpose of this research is to make clear the influence “best eating” and “desire to purchase” by analyzing the results of Kansei evaluation in greenhouse melon. Because the complex interaction with evaluations is influenced by the characteristic to Greenhouse Melon, and the trend of purchasing evaluations is different, it is necessary to analyze the interaction with Principal Component Analysis, Graphical Modeling and Discriminant Analysis. The sample is different four kinds of Greenhouse Melon on the hammering test. The results suggest that the structural analysis with Graphical Modeling and Discriminant Analysis is useful in branding.