Analytical thinking is the competency needed by students in order to compete and achieve success in the professional field for the 21st Century. Research that aims to examine the most optimal learning model in empowering students' analytical thinking needs to be done since many students have low ordered thinking skills. Through this quasi-experimental research design, differences in achievement of analytical thinking between students who attended TPS and PBL learning were reviewed. The study was conducted from April to June 2016, involving students of XI Science Class at the SSHS 13 of Banjarmasin, South Kalimantan Province Indonesia. The data from the study were analyzed using ANCOVA test at a significance level of 5%. The findings suggested that PBL was able to empower a significantly higher analytical thinking than that of TPS. Thus, implementing PBL in a variety of biology learning is recommended as an alternative strategy to improve the ability of analytical thinking of high school students, especially in Indonesia.