3D genomics across the tree of life reveals condensin II as a determinant of architecture type
Year: 2021
Type: dataset
Abstract: GAMinG script (python) and sequence file (.dat) to prepare files to run molecular dynamics in GROMACS (see ndb.rice.edu for more info regarding how to run the simulations). Two .hic maps and two sample trajectory files for high and low lengthwise compaction (binary format, see ndb.rice.edu for the conversion of .cndb to other formats) corresponding to fig 4 in the main text. There are also two aggregate chromosome analysis (ACA) hic maps corresponding to lower (CAPH2) and higher (WT) compaction.
Authors: Hoencamp, Claire, Dudchenko, Olga, Elbatsh, Ahmed M.O., Brahmachari, Sumitabha, Raaijmakers, Jonne A., Schaik, Tom van, Cacciatore, Ángela Sedeño, Contessoto, Vinicius, Heesbeen, Roy G.H.P. van, Broek, Bram van den, Mhaskar, Aditya N., Teunissen, Hans, Hilaire, Brian Glenn St, Weisz, David, Omer, Arina D., Pham, Melanie, Colaric, Zane, Yang, Zhenzhen, Rao, Suhas S.P., Mitra, Namita, Lui, Christopher, Yao, Weijie, Khan, Ruqayya, Moroz, Leonid L., Kohn, Andrea, Leger, Judy St., Mena, Alexandria, Holcroft, Karen, Gambetta, Maria Cristina, Lim, Fabian, Farley, Emma, Stein, Nils, Haddad, Alexander, Chauss, Daniel, Mutlu, Ayse Sena, Wang, Meng C., Young, Neil D., Hildebrandt, Evin, Cheng, Hans H., Knight, Christopher J., Burnham, Theresa L.U., Hovel, Kevin A., Beel, Andrew J., Mattei, Pierre-Jean, Kornberg, Roger D., Warren, Wesley C., Cary, Gregory, Gómez-Skarmeta, José Luis, Hinman, Veronica, Maeshima, Kazuhiro, Multani, Asha S., Pathak, Sen, Nel-Themaat, Liesl, Behringer, Richard R., Kaur, Parwinder, Medema, René H., Steensel, Bas van, Wit, Elzo de, Onuchic, José N., Pierro, Michele Di, Aiden, Erez Lieberman, Rowland, Benjamin D.
Institutions: The Netherlands Cancer Institute, Baylor College of Medicine, Center for Theoretical Biological Physics, Rice University, Oncode Institute, ShanghaiTech University, University of Florida, Cornell University, New York State College of Veterinary Medicine, SeaWorld San Diego, University of Lausanne, University of California San Diego, Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK), National Institutes of Health, National Institute of Diabetes and Digestive and Kidney Diseases, The University of Melbourne, Agricultural Research Service, Hopkins Marine Station, Stanford University, University of California, Davis, San Diego State University, Stanford Medicine, University of Missouri, Jackson Laboratory, Consejo Superior de Investigaciones Científicas, Centro Andaluz de Biología del Desarrollo, Universidad Pablo de Olavide, Carnegie Mellon University, National Institute of Genetics, The Graduate University for Advanced Studies, SOKENDAI, The University of Texas MD Anderson Cancer Center, The University of Western Australia
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W4394047316