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Cohesin and CTCF do not assemble TADs in Xenopus sperm and male pronuclei.

Autor: Jessberger G; Research Institute of Molecular Pathology (IMP), Vienna BioCenter (VBC), 1030 Vienna, Austria.; Vienna BioCenter PhD Program, Doctoral School of the University of Vienna and Medical University of Vienna, A-1030 Vienna, Austria., Várnai C; Institute of Cancer and Genomic Sciences, Birmingham Centre for Genome Biology, College of Medical and Dental Sciences, University of Birmingham, Birmingham B15 2SY, United Kingdom., Stocsits RR; Research Institute of Molecular Pathology (IMP), Vienna BioCenter (VBC), 1030 Vienna, Austria., Tang W; Research Institute of Molecular Pathology (IMP), Vienna BioCenter (VBC), 1030 Vienna, Austria., Stary G; Department of Dermatology, Medical University of Vienna, 1090 Vienna, Austria.; CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, 1090 Vienna, Austria., Peters JM; Research Institute of Molecular Pathology (IMP), Vienna BioCenter (VBC), 1030 Vienna, Austria; peters@imp.ac.at.

Publikováno v: Genome research [Genome Res] 2023 Dec 27; Vol. 33 (12), pp. 2094-2107. Date of Electronic Publication: 2023 Dec 27.

HiCognition: a visual exploration and hypothesis testing tool for 3D genomics.

Autor: Langer CCH; Institute of Molecular Biotechnology of the Austrian Academy of Sciences, Vienna BioCenter, Vienna, Austria., Mitter M; Institute of Molecular Biotechnology of the Austrian Academy of Sciences, Vienna BioCenter, Vienna, Austria., Stocsits RR; Research Institute of Molecular Pathology, Vienna BioCenter, Vienna, Austria., Gerlich DW; Institute of Molecular Biotechnology of the Austrian Academy of Sciences, Vienna BioCenter, Vienna, Austria. daniel.gerlich@imba.oeaw.ac.at.

Publikováno v: Genome biology [Genome Biol] 2023 Jul 05; Vol. 24 (1), pp. 158. Date of Electronic Publication: 2023 Jul 05.

ESCO1 and CTCF enable formation of long chromatin loops by protecting cohesin ^STAG1 from WAPL.

Autor: Wutz G; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Ladurner R; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., St Hilaire BG; The Center for Genome Architecture, Baylor College of Medicine, Houston, United States.; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, United States.; Center for Theoretical Biological Physics, Rice University, Houston, United States., Stocsits RR; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Nagasaka K; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Pignard B; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Sanborn A; The Center for Genome Architecture, Baylor College of Medicine, Houston, United States.; Department of Computer Science, Stanford University, Stanford, United States., Tang W; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Várnai C; Nuclear Dynamics Programme, The Babraham Institute, Babraham Research Campus, Cambridge, United Kingdom.; Centre for Computational Biology, University of Birmingham, Birmingham, United Kingdom., Ivanov MP; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Schoenfelder S; Nuclear Dynamics Programme, The Babraham Institute, Babraham Research Campus, Cambridge, United Kingdom., van der Lelij P; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Huang X; The Center for Genome Architecture, Baylor College of Medicine, Houston, United States.; Departments of Computer Science and Computational and Applied Mathematics, Rice University, Houston, United States.; Departments of Computer Science and Genome Sciences, University of Washington, Seattle, United States., Dürnberger G; Institute of Molecular Biotechnology, Vienna Biocenter (VBC), Vienna, Austria., Roitinger E; Institute of Molecular Biotechnology, Vienna Biocenter (VBC), Vienna, Austria., Mechtler K; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria.; Institute of Molecular Biotechnology, Vienna Biocenter (VBC), Vienna, Austria., Davidson IF; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Fraser P; Nuclear Dynamics Programme, The Babraham Institute, Babraham Research Campus, Cambridge, United Kingdom.; Department of Biological Science, Florida State University, Tallahassee, United States., Lieberman-Aiden E; The Center for Genome Architecture, Baylor College of Medicine, Houston, United States.; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, United States.; Center for Theoretical Biological Physics, Rice University, Houston, United States.; Departments of Computer Science and Computational and Applied Mathematics, Rice University, Houston, United States.; Broad Institute of MIT and Harvard, Cambridge, United States.; Shanghai Institute for Advanced Immunochemical Studies, Shanghai Tech University, Shanghai, China., Peters JM; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria.

Publikováno v: ELife [Elife] 2020 Feb 17; Vol. 9. Date of Electronic Publication: 2020 Feb 17.

Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins.

Autor: Wutz G; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Várnai C; Nuclear Dynamics Programme, The Babraham Institute, Babraham Research Campus, Cambridge, UK., Nagasaka K; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Cisneros DA; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Stocsits RR; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Tang W; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Schoenfelder S; Nuclear Dynamics Programme, The Babraham Institute, Babraham Research Campus, Cambridge, UK., Jessberger G; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Muhar M; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Hossain MJ; Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany., Walther N; Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany., Koch B; Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany., Kueblbeck M; Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany., Ellenberg J; Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany., Zuber J; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria., Fraser P; Nuclear Dynamics Programme, The Babraham Institute, Babraham Research Campus, Cambridge, UK.; Department of Biological Science, Florida State University, Tallahassee, FL, USA., Peters JM; Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria peters@imp.ac.at.

Publikováno v: The EMBO journal [EMBO J] 2017 Dec 15; Vol. 36 (24), pp. 3573-3599. Date of Electronic Publication: 2017 Dec 07.