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CREsted: modeling genomic and synthetic cell-type-specific enhancers across tissues and species.

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Title: CREsted: modeling genomic and synthetic cell-type-specific enhancers across tissues and species.
Authors: Kempynck N; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium., De Winter S; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium., Blaauw CH; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Oncode Institute, Hubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences) and University Medical Center Utrecht, Utrecht, the Netherlands., Konstantakos V; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium., Ekşi EC; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium., Dieltiens S; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium., Abaffyová D; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium., Bercier V; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Neurosciences, KU Leuven, Leuven, Belgium., Taskiran II; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Illumina Artificial Intelligence Laboratory, Illumina, Foster City, CA, USA., Hulselmans G; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD, USA., Spanier K; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium., Christiaens V; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD, USA., Van Den Bosch L; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Neurosciences, KU Leuven, Leuven, Belgium., Mahieu L; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD, USA., Aerts S; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium. stein.aerts@kuleuven.be.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium. stein.aerts@kuleuven.be.; Department of Human Genetics, KU Leuven, Leuven, Belgium. stein.aerts@kuleuven.be.; Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD, USA. stein.aerts@kuleuven.be.
Source: Nature methods [Nat Methods] 2026 May; Vol. 23 (5), pp. 946-959. Date of Electronic Publication: 2026 Apr 02.
Publication Type: Journal Article
Journal Info: Publisher: Nature Pub. Group Country of Publication: United States NLM ID: 101215604 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1548-7105 (Electronic) Linking ISSN: 15487091 NLM ISO Abbreviation: Nat Methods Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: CREsted: modeling genomic and synthetic cell-type-specific enhancers across tissues and species.
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  Data: <searchLink fieldCode="AU" term="%22Kempynck+N%22">Kempynck N</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22De+Winter+S%22">De Winter S</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22Blaauw+CH%22">Blaauw CH</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Oncode Institute, Hubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences) and University Medical Center Utrecht, Utrecht, the Netherlands.<br /><searchLink fieldCode="AU" term="%22Konstantakos+V%22">Konstantakos V</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22Ekşi+EC%22">Ekşi EC</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22Dieltiens+S%22">Dieltiens S</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22Abaffyová+D%22">Abaffyová D</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22Bercier+V%22">Bercier V</searchLink>; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Neurosciences, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22Taskiran+II%22">Taskiran II</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Illumina Artificial Intelligence Laboratory, Illumina, Foster City, CA, USA.<br /><searchLink fieldCode="AU" term="%22Hulselmans+G%22">Hulselmans G</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD, USA.<br /><searchLink fieldCode="AU" term="%22Spanier+K%22">Spanier K</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22Christiaens+V%22">Christiaens V</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD, USA.<br /><searchLink fieldCode="AU" term="%22Van+Den+Bosch+L%22">Van Den Bosch L</searchLink>; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Neurosciences, KU Leuven, Leuven, Belgium.<br /><searchLink fieldCode="AU" term="%22Mahieu+L%22">Mahieu L</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium.; Department of Human Genetics, KU Leuven, Leuven, Belgium.; Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD, USA.<br /><searchLink fieldCode="AU" term="%22Aerts+S%22">Aerts S</searchLink>; Laboratory of Computational Biology, VIB Center for AI and Computational Biology (VIB.AI), Leuven, Belgium. stein.aerts@kuleuven.be.; VIB-KU Leuven Center for Brain and Disease Research, Leuven, Belgium. stein.aerts@kuleuven.be.; Department of Human Genetics, KU Leuven, Leuven, Belgium. stein.aerts@kuleuven.be.; Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD, USA. stein.aerts@kuleuven.be.
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