The origin of the atmosphere of the largest moon of Saturn, Titan, is poorly understood and its chemistry is rather complicated. Ground-based millimeter/sub-millimeter heterodyne spectroscopy resolves line shapes sufficiently to determine information in Titans atmospheric composition (on vertical profiles and isotopic ratios). We test the capabilities of the Swedish Heterodyne Facility Instrument (SHFI), Receiver APEX-1, together with the Atacama Pathfinder EXperiment APEX 12-m telescope for Titans atmospheric observations. In particular we present sub-millimeter observations of the CO(2-1) and HCN(3-2) lines of the Titan stratosphere with APEX, and with SHFI taken during the Science Verification (SV) instrument phase on March and June 2008. With the help of appropriate radiative transfer calculations we investigate the possibility to constrain the chemical concentrations and optimize the performance of the APEX-1 instrument for inferring vertical profiles of molecular components of the atmosphere of Titan.