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Objectives: Cell models have shown great promise as tools for research, potentially providing intriguing alternatives to animal models. However, the original tissue characteristics must be maintained in culture, a fact that is often assumed, but seldom assessed. We aimed to follow the retention of the original tissue identities of cleft lip‐derived skin and mucosa keratinocytes in vitro. Methods: Cleft lip‐derived keratinocytes were isolated from discarded tissue along the cleft margins during cheiloplasty. Cell identities were assessed by immunohistochemistry and quantitative real‐time PCR for tissue‐specific markers and compared with native lip tissue. Moreover, keratinocytes were regularly analyzed for the retention of the original tissue characteristics by the aforementioned methods as well as by differentiation assays. Results: The various anatomical zones of the human lip could be distinguished using a panel of differentiation and functional‐based markers. Using these markers, retention of the original tissue identities could be followed and confirmed in the corresponding primary keratinocytes in culture. Conclusions: Our findings promote patient‐derived cells retaining their original identities as astonishing and clinically relevant in vitro tools. Such cells allow a better molecular understanding of various lip‐associated pathologies as well as their modeling in vitro, including but not restricted to orofacial clefts. [ABSTRACT FROM AUTHOR]