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PHLOWER leverages single-cell multimodal data to infer complex, multi-branching cell differentiation trajectories.

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Title: PHLOWER leverages single-cell multimodal data to infer complex, multi-branching cell differentiation trajectories.
Authors: Cheng M; Institute for Computational Genomics, RWTH Aachen University, Aachen, Germany.; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany., Jansen J; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany.; Department of Medicine 2 (Nephrology, Rheumatology, Clinical Immunology and Hypertension), RWTH Aachen University Medical Faculty, Aachen, Germany., Reimer KC; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany.; Department of Medicine 2 (Nephrology, Rheumatology, Clinical Immunology and Hypertension), RWTH Aachen University Medical Faculty, Aachen, Germany., Grande VP; Department of Computer Science, RWTH Aachen University, Aachen, Germany., Nagai JS; Institute for Computational Genomics, RWTH Aachen University, Aachen, Germany.; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany., Li Z; Gene Regulation Observatory, The Broad Institute of Harvard and MIT, Cambridge, MA, USA.; Molecular Pathology Unit, Krantz Family Center for Cancer Research, Massachusetts General Hospital, Boston, MA, USA., Kießling P; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany., Grasshoff M; Institute for Computational Genomics, RWTH Aachen University, Aachen, Germany.; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany., Kuppe C; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany., Schaub MT; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany.; Department of Computer Science, RWTH Aachen University, Aachen, Germany., Kramann R; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany. rkramann@ukaachen.de.; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany. rkramann@ukaachen.de.; Department of Medicine 2 (Nephrology, Rheumatology, Clinical Immunology and Hypertension), RWTH Aachen University Medical Faculty, Aachen, Germany. rkramann@ukaachen.de.; Department of Internal Medicine, Nephrology and Transplantation, Erasmus Medical Center, Rotterdam, the Netherlands. rkramann@ukaachen.de., Costa IG; Institute for Computational Genomics, RWTH Aachen University, Aachen, Germany. ivan.costa@rwth-aachen.de.; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany. ivan.costa@rwth-aachen.de.
Source: Nature methods [Nat Methods] 2025 Nov; Vol. 22 (11), pp. 2328-2336. Date of Electronic Publication: 2025 Oct 23.
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
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  Data: <searchLink fieldCode="AU" term="%22Cheng+M%22">Cheng M</searchLink>; Institute for Computational Genomics, RWTH Aachen University, Aachen, Germany.; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Jansen+J%22">Jansen J</searchLink>; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany.; Department of Medicine 2 (Nephrology, Rheumatology, Clinical Immunology and Hypertension), RWTH Aachen University Medical Faculty, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Reimer+KC%22">Reimer KC</searchLink>; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany.; Department of Medicine 2 (Nephrology, Rheumatology, Clinical Immunology and Hypertension), RWTH Aachen University Medical Faculty, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Grande+VP%22">Grande VP</searchLink>; Department of Computer Science, RWTH Aachen University, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Nagai+JS%22">Nagai JS</searchLink>; Institute for Computational Genomics, RWTH Aachen University, Aachen, Germany.; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Li+Z%22">Li Z</searchLink>; Gene Regulation Observatory, The Broad Institute of Harvard and MIT, Cambridge, MA, USA.; Molecular Pathology Unit, Krantz Family Center for Cancer Research, Massachusetts General Hospital, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Kießling+P%22">Kießling P</searchLink>; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Grasshoff+M%22">Grasshoff M</searchLink>; Institute for Computational Genomics, RWTH Aachen University, Aachen, Germany.; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Kuppe+C%22">Kuppe C</searchLink>; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Schaub+MT%22">Schaub MT</searchLink>; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany.; Department of Computer Science, RWTH Aachen University, Aachen, Germany.<br /><searchLink fieldCode="AU" term="%22Kramann+R%22">Kramann R</searchLink>; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany. rkramann@ukaachen.de.; Institute for Experimental Internal Medicine and Systems Biology, RWTH Aachen University, Aachen, Germany. rkramann@ukaachen.de.; Department of Medicine 2 (Nephrology, Rheumatology, Clinical Immunology and Hypertension), RWTH Aachen University Medical Faculty, Aachen, Germany. rkramann@ukaachen.de.; Department of Internal Medicine, Nephrology and Transplantation, Erasmus Medical Center, Rotterdam, the Netherlands. rkramann@ukaachen.de.<br /><searchLink fieldCode="AU" term="%22Costa+IG%22">Costa IG</searchLink>; Institute for Computational Genomics, RWTH Aachen University, Aachen, Germany. ivan.costa@rwth-aachen.de.; Center for Computational Life Sciences, RWTH Aachen University, Aachen, Germany. ivan.costa@rwth-aachen.de.
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  Data: <searchLink fieldCode="JN" term="%22101215604%22">Nature methods</searchLink> [Nat Methods] 2025 Nov; Vol. 22 (11), pp. 2328-2336. <i>Date of Electronic Publication: </i>2025 Oct 23.
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