Background: Advancedcolorectal cancer (CRC) remains a challenging disease requiring a multidisciplinary approach, combining surgery with chemotherapy, yet most cases still has worse outcomes. Molecular variations were considered to be related to the clinical response. Moreover, emerging data suggest that circulating tumor DNA (ctDNA) may detect minimal residual disease (MRD) and reflect treatment efficacyacross diverse cancer types. However, most reported ctDNA measurements are based on monitoring a few hotspot mutations and their predictive value in advanced CRCs are still undetermined. Here, we carried out WES sequencing to explore the genomic landscape in CRC patients and developedctDNA fingerprints panelswhich are based on the top somatic mutated genes of each individual to evaluate the early changes of ctDNA fingerprints in chemo-treated advanced CRC patients as a marker of clinical benefits.Methods: We enrolled 122 patients with CRC and analyzed their genetic profilinginclude somatic alterations and copy number variations. Meanwhile, we monitored their ctDNA fingerprints changes along the course of treatment by serial sampling of peripheral blood. Seventy-one of the patients were treated with standard chemotherapy, and theirctDNAfingerprints variations were used to assess the prognosis. We analyzed the correlation between ctDNA fingerprints levels and overall survival (OS) of the patients.Results: Among the 122 enrolled patients,theTP53 (70%), APC (59%) and KRAS (38%) are most frequently mutationsin CRC patients. The AHNAK mutation and HOXB-AS1 amplification are associated with survival times.We monitored the baseline ctDNAvalue and found thatthe ctDNA-high group has a shorter OS than that of the ctDNA-low group (HR, 2.89; CI 95% 1.45-5.79; p = 0.0027). The conclusion stands when only 48of the 122 patients, who had advanced CRC (stage IV) received chemotherapy (HR, 1.60; CI 95% 0.61-4.17; p = 0.037). Moreover, change of ctDNA fingerprints were associated with survival timesduring the course of chemotherapy, a decreased group has a favorable clinical benefit. We compared the performance of ctDNA fingerprints in predicting clinical outcomes with that of imaging-based diagnosis in 34 advanced CRC patients, andfound that 52.9% (18/34) of the patients had consistent outcomes between ctDNA fingerprints and imaging diagnosis.Conclusions: This study analysis the genetic characteristics of CRC patients and explore molecular markers related to the prognosis. It is also confirming the association between baseline levels of ctDNA fingerprints and survival times in CRCs. More importantly, it suggests early change of ctDNA fingerprints level in plasma is a promising biomarker of chemotherapy efficacy and patient prognosis in advanced CRCs.