{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,8,21]],"date-time":"2025-08-21T17:05:25Z","timestamp":1755795925777,"version":"3.41.2"},"reference-count":68,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2024,8,22]],"date-time":"2024-08-22T00:00:00Z","timestamp":1724284800000},"content-version":"vor","delay-in-days":28,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"crossref","award":["RS-2024-00405360","2023R1A2C3002619"],"award-info":[{"award-number":["RS-2024-00405360","2023R1A2C3002619"]}],"id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,7,25]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>The tendency for cell fate to be robust to most perturbations, yet sensitive to certain perturbations raises intriguing questions about the existence of a key path within the underlying molecular network that critically determines distinct cell fates. Reprogramming and trans-differentiation clearly show examples of cell fate change by regulating only a few or even a single molecular switch. However, it is still unknown how to identify such a switch, called a master regulator, and how cell fate is determined by its regulation. Here, we present CAESAR, a computational framework that can systematically identify master regulators and unravel the resulting canalizing kernel, a key substructure of interconnected feedbacks that is critical for cell fate determination. We demonstrate that CAESAR can successfully predict reprogramming factors for de-differentiation into mouse embryonic stem cells and trans-differentiation of hematopoietic stem cells, while unveiling the underlying essential mechanism through the canalizing kernel. CAESAR provides a system-level understanding of how complex molecular networks determine cell fates.<\/jats:p>","DOI":"10.1093\/bib\/bbae406","type":"journal-article","created":{"date-parts":[[2024,8,22]],"date-time":"2024-08-22T23:13:53Z","timestamp":1724368433000},"source":"Crossref","is-referenced-by-count":4,"title":["Canalizing kernel for cell fate determination"],"prefix":"10.1093","volume":"25","author":[{"given":"Namhee","family":"Kim","sequence":"first","affiliation":[{"name":"Laboratory for Systems Biology and Bio-inspired Engineering , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"},{"name":"Korea Advanced Institute of Science and Technology (KAIST) , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"}]},{"given":"Jonghoon","family":"Lee","sequence":"additional","affiliation":[{"name":"Laboratory for Systems Biology and Bio-inspired Engineering , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"},{"name":"Korea Advanced Institute of Science and Technology (KAIST) , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"}]},{"given":"Jongwan","family":"Kim","sequence":"additional","affiliation":[{"name":"Laboratory for Systems Biology and Bio-inspired Engineering , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"},{"name":"Korea Advanced Institute of Science and Technology (KAIST) , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"}]},{"given":"Yunseong","family":"Kim","sequence":"additional","affiliation":[{"name":"Laboratory for Systems Biology and Bio-inspired Engineering , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"},{"name":"Korea Advanced Institute of Science and Technology (KAIST) , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7380-7142","authenticated-orcid":false,"given":"Kwang-Hyun","family":"Cho","sequence":"additional","affiliation":[{"name":"Laboratory for Systems Biology and Bio-inspired Engineering , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"},{"name":"Korea Advanced Institute of Science and Technology (KAIST) , Department of Bio and Brain Engineering, , Daejeon 34141 , Republic of Korea"}]}],"member":"286","published-online":{"date-parts":[[2024,8,22]]},"reference":[{"key":"2024082219125831900_ref1","doi-asserted-by":"crossref","first-page":"168","DOI":"10.1038\/16483","article-title":"Robustness in bacterial chemotaxis","volume":"397","author":"Alon","year":"1999","journal-title":"Nature"},{"key":"2024082219125831900_ref2","doi-asserted-by":"crossref","first-page":"5031","DOI":"10.1073\/pnas.97.10.5031","article-title":"Cell signaling pathways as control modules: complexity for 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