The present invention relates to a biodegradable suture-type cell delivery system, a preparation method thereof and a biodegradable suture comprising the same. The biodegradable suture-type cell delivery system has improved cell compatibility as a result of depositing a hydrophilic functional group-containing compound on the surface of a biodegradable suture yarn made of a biodegradable polymer, a portion of which has partially a bulky structure beneficial for the proliferation of cells or living tissue, so as to hydrophilically modify the surface, and then bonding a cell compatible material to the surface, and also functions as a cell culture scaffold, because the bulky structure is beneficial for the proliferation of cells. Accordingly, the biodegradable suture-type cell delivery system can improve the rate of engraftment of stem cells in vivo.