This study is a follow-up to the analysis of an inquiry-based learning activity applied to students in a public university in Brazil. We advocate that an effective education in immunology must incorporate elements that are essential to research in the area, such as generating and analysing data. These elements would empower students to apply science reasoning to face professional challenges. Our protocol included two of these elements: experimentation and abstraction. The utmost aim was to examine the production of argument by groups engaged in three different activities: 1) performing experiments and analysing the data generated; 2) reading papers on the subject (activation of complement) prior to the activities in (1), and 3) reading papers on the subject and analysing data generated by others. Our analysis reveals that guided scientific paper presentation was more influential than performing an experiment in terms of production of complex arguments. Additionally, we found that some groups merely described the data rather than relating the obtained data to the original question that led to the experiments. The findings described herein show the importance of engaging students in procedures that actually generate knowledge and thus incorporate scientific reasoning and discourse in higher immunology education.