The invention discloses a three-dimensional integrated filter based on glass through holes. The filter comprises a first layer, a second layer, a third layer and a fourth layer, wherein the first layer comprises first metal plates and first metal wires, and the plurality of first metal plates are connected with the first metal wires; the second layer comprises a dielectric substrate and a second metal plate, the dielectric substrate is arranged above the first metal plates and the first metal wires, and the second metal plate is arranged in the dielectric substrate; the third layer comprises aglass substrate and glass through holes, the glass substrate is arranged above the second layer, and the glass through holes penetrate through the glass substrate; the fourth layer comprises a thirdmetal plate and a second metal wire, the second metal wire is arranged above the third layer and defines a second area structure, and the third metal plate is arranged in the second area structure. According to the invention, a three-dimensional spiral inductor and a plate capacitor are constructed based on the glass through holes, and an equivalent filter structure formed by series-parallel connection of the three-dimensional spiral inductor and the plate capacitor is compact in structure, small in size, convenient to integrate and flexible in design.