In this paper, a novel and systematic Low-Density Parity-Check (LDPC) code construction, verification and implementation methodology is proposed. The methodology is composed by the simulated annealing based LDPC code constructor, the GPU based high-speed code selector and the ant colony optimization based pipeline scheduler and the FPGA-based hardware implementer. Compared to the traditional ways, this methodology enables authors to construct both decoding-performance-aware and hardware-efficiency-aware LDPC codes in a short time. Simulation results show that the generated codes have much less cycles (length 6 cycles eliminated) and memory conflicts (75% reduction on idle clocks), while having no BER performance loss compared to WiMAX codes. Additionally, the simulation speeds up by 490 times under float precision against CPU and a net throughput 24.5 Mbps is achieved.