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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
biochemistry, genetics and molecular biology
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line
Nature Genetics, Volume 41, No. 5, Year 2009
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Description
Using deep sequencing (deepCAGE), the FANTOM4 study measured the genome-wide dynamics of transcription-start-site usage in the human monocytic cell line THP-1 throughout a time course of growth arrest and differentiation. Modeling the expression dynamics in terms of predicted cis-regulatory sites, we identified the key transcription regulators, their time-dependent activities and target genes. Systematic siRNA knockdown of 52 transcription factors confirmed the roles of individual factors in the regulatory network. Our results indicate that cellular states are constrained by complex networks involving both positive and negative regulatory interactions among substantial numbers of transcription factors and that no single transcription factor is both necessary and sufficient to drive the differentiation process. © 2009 Nature America, Inc. All rights reserved.
Authors & Co-Authors
Suzuki, Harukazu
Japan, Yokohama
Riken Yokohama Institute
Forrest, Alistair R.R.
Japan, Yokohama
Riken Yokohama Institute
Australia, Brisbane
Griffith University
van Nimwegen, Erik
Switzerland, Basel
Biozentrum, Universität Basel
Daub, Carsten Olivier
Japan, Yokohama
Riken Yokohama Institute
Balwierz, Piotr Jan
Switzerland, Basel
Biozentrum, Universität Basel
Irvine, Katharine M.
Australia, Brisbane
The University of Queensland
Lassmann, Timo
Japan, Yokohama
Riken Yokohama Institute
Ravasi, Timothy
United States, La Jolla
Department of Bioengineering
Hasegawa, Yuki
Japan, Yokohama
Riken Yokohama Institute
De Hoon, Michiel Jl L.
Japan, Yokohama
Riken Yokohama Institute
Katayama, Shintaro
Japan, Yokohama
Riken Yokohama Institute
Schroder, Kate
Australia, Brisbane
The University of Queensland
Carninci, Piero
Japan, Yokohama
Riken Yokohama Institute
Tomaru, Yasuhiro
Japan, Yokohama
Riken Yokohama Institute
Kanamori-Katayama, Mutsumi
Japan, Yokohama
Riken Yokohama Institute
Kubosaki, Atsutaka
Japan, Yokohama
Riken Yokohama Institute
Akalin, Altuna
Norway, Bergen
Bergen High Technology Center
Ando, Yoshinari
Japan, Yokohama
Riken Yokohama Institute
Arner, Erik
Japan, Yokohama
Riken Yokohama Institute
Asada, Maki
Japan, Tokyo
National Research Institute for Child Health and Development
Asahara, Hiroshi
Japan, Tokyo
National Research Institute for Child Health and Development
Bailey, Timothy L.
Australia, Brisbane
The University of Queensland
Bajic, Vladimir B.
South Africa, Bellville
University of the Western Cape
Bauer, Denis C.
Australia, Brisbane
The University of Queensland
Beckhouse, Anthony G.
Australia, Brisbane
Griffith University
Bertin, Nicolas
Japan, Yokohama
Riken Yokohama Institute
Björkegren, Johan L.M.
Sweden, Stockholm
Karolinska Institutet
Brombacher, Frank
South Africa, Cape Town
Faculty of Health Sciences
Bulger, Erika
Japan, Yokohama
Riken Yokohama Institute
Chalk, Alistair M.
Australia, Brisbane
Griffith University
Chiba, Joe
Japan, Tokyo
Tokyo University of Science
Cloonan, Nicole
Australia, Brisbane
The University of Queensland
Dawe, Adam S.
South Africa, Bellville
University of the Western Cape
Dostie, Josée
Canada, Montreal
Université Mcgill
Engström, Pär G.
Norway, Bergen
Bergen High Technology Center
Essack, Magbubah M.
South Africa, Bellville
University of the Western Cape
Faulkner, Geoffrey John
Australia, Brisbane
The University of Queensland
Fink, J. Lynn
Australia, Brisbane
The University of Queensland
Fredman, David
Norway, Bergen
Bergen High Technology Center
Fujimori, Ko
Japan, Takatsuki
Osaka Medical and Pharmaceutical University
Furuno, Masaaki
Japan, Yokohama
Riken Yokohama Institute
Gojobori, Takashi
Japan, Minato
Research Organization of Information and Systems
Gough, Julian
United Kingdom, Bristol
University of Bristol
Grimmond, Sean M.
Australia, Brisbane
The University of Queensland
Gustafsson, Mika C.
Sweden, Linkoping
Linköpings Universitet
Hashimoto, Megumi
Japan, Tokyo
National Research Institute for Child Health and Development
Hashimoto, Takehiro
Japan, Yokohama
Riken Yokohama Institute
Okada, Mariko Hatakeyama
Japan, Yokohama
Riken Yokohama Institute
Heinzel, Susanne
Australia, Adelaide
Flinders University
Hide, Winston A.
United States, La Jolla
Department of Bioengineering
United States, Boston
Harvard T.h. Chan School of Public Health
Hofmann, Oliver M.
South Africa, Bellville
University of the Western Cape
United States, Boston
Harvard T.h. Chan School of Public Health
Hörnquist, Michael
Sweden, Linkoping
Linköpings Universitet
Huminiecki, Lucasz
Sweden, Stockholm
Karolinska Institutet
Ikeo, Kazuho
Japan, Minato
Research Organization of Information and Systems
Imamoto, Naoko
Japan, Wako
Riken Wako Insititute
Inoue, Sathoshi
Japan, Tokyo
Graduate School of Medicine
Inoue, Yusuke
Japan, Maebashi
Gunma University
Ishihara, Ryoko
Japan, Yokohama
Riken Yokohama Institute
Iwayanagi, Takao
Japan, Tokyo
Hitachi, Ltd.
Skanderup, Anders Jacobsen
Denmark, Copenhagen
Københavns Universitet
Kaur, Mandeep
South Africa, Bellville
University of the Western Cape
Kawaji, Hideya
Japan, Yokohama
Riken Yokohama Institute
Kerr, Markus Charles
Australia, Brisbane
The University of Queensland
Kimura, Ryuichiro
Japan, Tokyo
Tokyo University of Science
Kimura, Shuuhei
Japan, Tottori
Tottori University
Kimura, Yasumasa
Japan, Yokohama
Riken Yokohama Institute
Kitano, Hiroaki
Japan, Tokyo
Systems Biology Institute
Koga, Hisashi
Japan, Kisarazu
Kazusa Dna Research Institute
Kojima, Toshio
Japan, Yokohama
Riken Yokohama Institute
Kondo, Shinji
Japan, Yokohama
Riken Yokohama Institute
Konno, Takeshi
Japan, Minato
Research Organization of Information and Systems
Krogh, Anders
Denmark, Copenhagen
Københavns Universitet
Kruger, Adele
South Africa, Bellville
University of the Western Cape
Kumar, Ajit
United States, Washington, D.c.
George Washington University Medical Center
Lenhard, Boris
Norway, Bergen
Bergen High Technology Center
Lennartsson, Andreas
Japan, Yokohama
Riken Yokohama Institute
Lindow, Morten
Denmark, Copenhagen
Københavns Universitet
Lizio, Marina
Japan, Yokohama
Riken Yokohama Institute
MacPherson, Cameron Ross
South Africa, Bellville
University of the Western Cape
Maeda, Norihiro
Japan, Yokohama
Riken Yokohama Institute
Maher, Christopher A.
South Africa, Bellville
University of the Western Cape
Maqungo, Monique
South Africa, Bellville
University of the Western Cape
Mar, Jessica C.
United States, Boston
Dana-farber Cancer Institute
Matigian, Nicholas A.
Australia, Brisbane
Griffith University
Matsuda, Hideo
Japan, Suita
Osaka University
Mattick, John S.
Australia, Brisbane
The University of Queensland
Meier, Stuart K.
South Africa, Bellville
University of the Western Cape
Miyamoto, Sei
Japan, Minato
Research Organization of Information and Systems
Miyamoto-Sato, Etsuko
Japan, Tokyo
Keio University
Nakabayashi, Kazuhiko
Japan, Tokyo
Tokyo University of Science
Nakachi, Yutaka
Japan, Moroyama
Saitama Medical University
Nakano, Mika
Japan, Yokohama
Riken Yokohama Institute
Nygaard, Sanne
Denmark, Copenhagen
Københavns Universitet
Okayama, Toshitsugu
Japan, Minato
Research Organization of Information and Systems
Okazaki, Yasushi
Japan, Moroyama
Saitama Medical University
Okuda-Yabukami, Haruka
Japan, Yokohama
Riken Yokohama Institute
Orlando, Valerio
Italy, Rome
Centro Europeo Di Ricerca Sul Cervello, Roma
Otomo, Jun
Italy, Naples
Institute of Genetics and Biophysics Adriano Buzzati Traverso
Pachkov, Mikhail V.
Switzerland, Basel
Biozentrum, Universität Basel
Petrovsky, Nikolai P.
Australia, Adelaide
Flinders University
Statistics
Citations: 440
Authors: 100
Affiliations: 33
Identifiers
Doi:
10.1038/ng.375
ISSN:
10614036
e-ISSN:
15461718