A trench isolation structure in a semiconductor device is provided. A semiconductor substrate has cell regions and peripheral circuit regions. First trenches have a predetermined depth and are formed in the semiconductor substrate at the cell regions. A first sidewall oxide film is formed overlying the first trenches. A first liner nitride film is formed overlying the first sidewall oxide film. Second trenches have a predetermined depth and are formed in the semiconductor substrate at the peripheral circuit regions. A second sidewall oxide film is formed overlying the second trenches. An oxide film fills the first overlying second trenches. A second liner nitride film formed on the filling oxide film. The second liner nitride film is separated from the sidewalls of the first and second trenches.