Abstract
Original language | English |
---|---|
Pages (from-to) | 553 - 562 |
Number of pages | 10 |
Journal | Nature Genetics |
Volume | 41 |
Issue number | 5 |
DOIs | |
Publication status | Published - 2009 |
Externally published | Yes |
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In: Nature Genetics, Vol. 41, No. 5, 2009, p. 553 - 562.
Research output: Contribution to journal › Article › Research › peer-review
TY - JOUR
T1 - The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line
AU - Suzuki, Harukazu
AU - Forrest, Alistair R R
AU - van Nimwegen, Erik
AU - Daub, Carsten O
AU - Balwierz, Piotr J
AU - Irvine, Katharine M
AU - Lassmann, Timo
AU - Ravasi, Timothy
AU - Hasegawa, Yuki
AU - de Hoon, Michiel J L
AU - Katayama, Shintaro
AU - Schroder, Kate
AU - Carninci, Piero
AU - Tomaru, Yasuhiro
AU - Kanamori-Katayama, Mutsumi
AU - Kubosaki, Atsutaka
AU - Akalin, Altuna
AU - Ando, Yoshinari
AU - Arner, Erik
AU - Asada, Maki
AU - Asahara, Hiroshi
AU - Bailey, Timothy
AU - Bajic, Vladimir B
AU - Bauer, Denis
AU - Beckhouse, Anthony G
AU - Bertin, Nicolas
AU - Bjorkegren, Johan
AU - Brombacher, Frank
AU - Bulger, Erika
AU - Chalk, Alistair M
AU - Chiba, Joe
AU - Cloonan, Nicole
AU - Dawe, Adam
AU - Dostie, Josee
AU - Engstrom, Par G
AU - Essack, Magbubah
AU - Faulkner, Geoffrey J
AU - Fink, J Lynn
AU - Fredman, David
AU - Fujimori, Ko
AU - Furuno, Masaaki
AU - Gojobori, Takashi
AU - Gough, Julian
AU - Grimmond, Sean M
AU - Gustafsson, Mika
AU - Hashimoto, Megumi
AU - Hashimoto, Takehiro
AU - Hatakeyama, Mariko
AU - Heinzel, Susanne
AU - Hide, Winston
AU - Hofmann, Oliver
AU - Hornquist, Michael
AU - Huminiecki, Lukasz
AU - Ikeo, Kazuho
AU - Imamoto, Naoko
AU - Inoue, Satoshi
AU - Inoue, Yusuke
AU - Ishihara, Ryoko
AU - Iwayanagi, Takao
AU - Jacobsen, Anders
AU - Kaur, Mandeep
AU - Kawaji, Hideya
AU - Kerr, Markus C
AU - Kimura, Ryuichiro
AU - Kimura, Syuhei
AU - Kimura, Yasumasa
AU - Kitano, Hiroaki
AU - Koga, Hisashi
AU - Kojima, Toshio
AU - Kondo, Shinji
AU - Konno, Takeshi
AU - Krogh, Anders
AU - Kruger, Adele
AU - Kumar, Ajit
AU - Lenhard, Boris
AU - Lennartsson, Andreas
AU - Lindow, Morten
AU - Lizio, Marina
AU - MacPherson, Cameron
AU - Maeda, Norihiro
AU - Maher, Christopher A
AU - Maqungo, Monique
AU - Mar, Jessica
AU - Matigian, Nicholas A
AU - Matsuda, Hideo
AU - Mattick, John S
AU - Meier, Stuart
AU - Miyamoto, Sei
AU - Miyamoto-Sato, Etsuko
AU - Nakabayashi, Kazuhiko
AU - Nakachi, Yutaka
AU - Nakano, Mika
AU - Nygaard, Sanne
AU - Okayama, Toshitsugu
AU - Okazaki, Yasushi
AU - Okuda-Yabukami, Haruka
AU - Orlando, Valerio
AU - Otomo, Jun
AU - Pachkov, Mikhail
AU - Petrovsky, Nikolai
AU - Plessy, Charles
AU - Quackenbush, John
AU - Radovanovic, Alexandar
AU - Rehli, Michael
AU - Saito, Rintaro
AU - Sandelin, Albin
AU - Schmeier, Sebastian
AU - Schonbach, Christian
AU - Schwartz, Ariel S
AU - Semple, Colin A
AU - Sera, Miho
AU - Severin, Jessica
AU - Shirahige, Katsuhiko
AU - Simons, Cas
AU - St. Laurent, George
AU - Suzuki, Masanori
AU - Suzuki, Takahiro
AU - Sweet, Matthew J
AU - Taft, Ryan J
AU - Takeda, Shizu
AU - Takenaka, Yoichi
AU - Tan, Kai
AU - Taylor, Martin S
AU - Teasdale, Rohan D
AU - Tegner, Jesper
AU - Teichmann, Sarah
AU - Valen, Eivind
AU - Wahlestedt, Claes
AU - Waki, Kazunori
AU - Waterhouse, Andrew
AU - Wells, Christine A
AU - Winther, Ole
AU - Wu, Linda
AU - Yamaguchi, Kazumi
AU - Yanagawa, Hiroshi
AU - Yasuda, Jun
AU - Zavolan, Mihaela
AU - Hume, David A
AU - Arakawa, Takahiro
AU - Fukuda, Shiro
AU - Imamura, Kengo
AU - Kai, Chikatoshi
AU - Kaiho, Ai
AU - Kawashima, Tsugumi
AU - Kawazu, Chika
AU - Kitazume, Yayoi
AU - Kojima, Miki
AU - Miura, Hisashi
AU - Murakami, Kayoko
AU - Murata, Mitsuyoshi
AU - Ninomiya, Noriko
AU - Nishiyori, Hiromi
AU - Noma, Shohei
AU - Ogawa, Chihiro
AU - Sano, Takuma
AU - Simon, Christophe
AU - Tagami, Michihira
AU - Takahashi, Yukari
AU - Kawai, Jun
AU - Hayashizaki, Yoshihide
PY - 2009
Y1 - 2009
N2 - 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.
AB - 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.
UR - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19377474
U2 - 10.1038/ng.375
DO - 10.1038/ng.375
M3 - Article
SN - 1061-4036
VL - 41
SP - 553
EP - 562
JO - Nature Genetics
JF - Nature Genetics
IS - 5
ER -