A radio-frequency based catheter system and method for ablating biological tissues within the body vessel of a patient comprises a radio-frequency (''RF'') generator for selectively generating a high frequency RF energy signal in a deployable catheter having an RF transmission line, an RF antenna mounted on the distal portion of the catheter, and a temperature sensor also mounted on a distal portion of the catheter for detecting temperature adjacent an ablation site. A control system adjusts the RF energy signal so that the detected temperature is at or close to a selected temperature setting or within a selected temperature range.