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          Institute: MPI für molekulare Genetik     Collection: Department of Vertebrate Genomics     Display Documents

ID: 554588.0, MPI für molekulare Genetik / Department of Vertebrate Genomics
An atlas of combinatorial transcriptional regulation in mouse and man.
Authors:Ravasi, T.; Suzuki, H.; Cannistraci, C. V.; Katayama, S.; Bajic, V. B.; Tan, K.; Akalin, A.; Schmeier, S.; Kanamori-Katayama, M.; Bertin, N.; Carninci, P.; Daub, C. O.; Forrest, A. R.; Gough, J.; Grimmond, S.; Han, J. H.; Hashimoto, T.; Hide, W.; Hofmann, O.; Kamburov, A.; Kaur, M.; Kawaji, H.; Kubosaki, A.; Lassmann, T.; van Nimwegen, E.; MacPherson, C. R.; Ogawa, C.; Radovanovic, A.; Schwartz, A.; Teasdale, R. D.; Tegner, J.; Lenhard, B.; Teichmann, S. A.; Arakawa, T.; Ninomiya, N.; Murakami, K.; Tagami, M.; Fukuda, S.; Imamura, K.; Kai, C.; Ishihara, R.; Kitazume, Y.; Kawai, J.; Hume, D. A.; Ideker, T.; Hayashizaki, Y.
Research Context:The work for the RIKEN Omics Science Center was supported by grants from the Japanese Ministry of Education, Culture, Sports, Science and Technology (MEXT) through the Genome Network Project and for the RIKEN Omics Science Center (YH, Principal Investigator). Members of the FANTOM Consortium were supported by grant MH062261 from the US National Institute of Mental Health (TR, KT, TI), the King Abdullah University of Science and Technology (TR, VBB), the Max Planck Society for the Advancement of Science (AK), the SA National Bioinformatics Network (SS, AR, VBB, WAH), the Claude Leon Foundation (MK), a CJ Martin Fellowship from the Australian NHMRC (ARRF), and the Scuola Interpolitecnica di Dottorato (CVC).
Date of Publication (YYYY-MM-DD):2010-03-05
Title of Journal:Cell
Journal Abbrev.:Cell
Issue / Number:5
Start Page:744
End Page:752
Review Status:not specified
Audience:Experts Only
Abstract / Description:Combinatorial interactions among transcription factors are critical to directing tissue-specific gene expression. To build a global atlas of these combinations, we have screened for physical interactions among the majority of human and mouse DNA-binding transcription factors (TFs). The complete networks contain 762 human and 877 mouse interactions. Analysis of the networks reveals that highly connected TFs are broadly expressed across tissues, and that roughly half of the measured interactions are conserved between mouse and human. The data highlight the importance of TF combinations for determining cell fate, and they lead to the identification of a SMAD3/FLI1 complex expressed during development of immunity. The availability of large TF combinatorial networks in both human and mouse will provide many opportunities to study gene regulation, tissue differentiation, and mammalian evolution.
Free Keywords:Animals;
Cell Differentiation;
Evolution, Molecular;
Gene Expression Regulation;
Gene Regulatory Networks;
Organ Specificity;
Smad3 Protein/metabolism;
Transcription Factors/*metabolism
Comment of the Author/Creator:Email: tideker@ucsd.edu
Email: yosihide@gsc.riken.jp
External Publication Status:published
Document Type:Article
Communicated by:Hans Lehrach
Affiliations:MPI für molekulare Genetik
External Affiliations:1.The FANTOM Consortium, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA;
2.RIKEN Omics Science Center, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA;
3.General Organizers, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA;
4.Departments of Medicine and Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA;
5.Red Sea Integrative Systems Biology Laboratory, Division of Chemical & Life Sciences and Engineering, Computational Bioscience Research Center, King Abdullah University for Science and Technology, Jeddah, Kingdom of Saudi Arabia;
6.RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho Tsurumi-ku Yokohama, Kanagawa, 230-0045 Japan;
7.Department of Mechanics, Politecnico di Torino, I-10129 Turin, Italy;
8.Proteome Biochemistry, San Raffaele Scientific Institute, 20132 Milan, Italy;
9.CMP Group Microsoft Research, Politecnico di Torino, I-10129 Turin, Italy;
10.South African National Bioinformatics Institute, University of the Western Cape, Private Bag X17, Bellville, 7535 South Africa;
11.Bergen Center for Computational Science, Høyteknologisenteret Thormøhlensgate 55, N-5008 Bergen, Norway;
12.The Eskitis Institute for Cell and Molecular Therapies, Griffith University, QLD 4111, Australia;
13.Department of Computer Science, University of Bristol, Merchant Venturers Building, Woodland Road, Bristol, BS8 1UB, UK;
14.Australian Research Council Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, The University of Queensland, St. Lucia, QLD 4072, Australia;
15.MRC Laboratory of Molecular Biology, Cambridge CB2 0QH, UK;
16.Biostatistics Department, Harvard School of Public Health, 655 Huntington Avenue, Boston, MA 02115, USA;
17.Biozentrum, University of Basel, and Swiss Institute of Bioinformatics, Klingelbergstrasse 50/70, CH-4056 Basel, 4056, Switzerland;
18.Computational Medicine Group, Atherosclerosis Research Unit, Center for Molecular Medicine, Department of Medicine, Karolinska Institutet, Karolinska University Hospital Solna SE- 171 76 Stockholm, Sweden;
19.Department of Physics, Chemistry and Biology, Linköping University, SE-581 83 Linköping, Sweden;
20.The Roslin Institute and Royal (Dick) School of Veterinary Studies, The University of Edinburgh, Roslin, EH259PS, UK;
21.The Institute for Genomic Medicine, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.
Identifiers:ISSN:0092-8674 [ID No:1]
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=... [ID No:2]
DOI:10.1016/j.cell.2010.01.044 [ID No:3]
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