The schistosomiasis-associated colorectal cancer (SA-CRC) is thought to be caused by the chronic inflammation as a result of schistosomal ova deposition in the submucosal layer of the intestine. It is reported that SA-CRC differs from sporadic colorectal cancer (S-CRC) in terms of epidemiological features, histological patterns, and clinical outcomes, which is also supported by our institutional data. Here we investigate the genomic alternations and probable molecular determinants of pathogenesis in Chinese SA-CRC.