An atlas of combinatorial transcriptional regulation in mouse and man.
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.
Ravasi
Timothy
T
The FANTOM Consortium, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.
Suzuki
Harukazu
H
Cannistraci
Carlo Vittorio
CV
Katayama
Shintaro
S
Bajic
Vladimir B
VB
Tan
Kai
K
Akalin
Altuna
A
Schmeier
Sebastian
S
Kanamori-Katayama
Mutsumi
M
Bertin
Nicolas
N
Carninci
Piero
P
Daub
Carsten O
CO
Forrest
Alistair R R
AR
Gough
Julian
J
Grimmond
Sean
S
Han
Jung-Hoon
JH
Hashimoto
Takehiro
T
Hide
Winston
W
Hofmann
Oliver
O
Kamburov
Atanas
A
Kaur
Mandeep
M
Kawaji
Hideya
H
Kubosaki
Atsutaka
A
Lassmann
Timo
T
van Nimwegen
Erik
E
MacPherson
Cameron Ross
CR
Ogawa
Chihiro
C
Radovanovic
Aleksandar
A
Schwartz
Ariel
A
Teasdale
Rohan D
RD
Tegnér
Jesper
J
Lenhard
Boris
B
Teichmann
Sarah A
SA
Arakawa
Takahiro
T
Ninomiya
Noriko
N
Murakami
Kayoko
K
Tagami
Michihira
M
Fukuda
Shiro
S
Imamura
Kengo
K
Kai
Chikatoshi
C
Ishihara
Ryoko
R
Kitazume
Yayoi
Y
Kawai
Jun
J
Hume
David A
DA
Ideker
Trey
T
Hayashizaki
Yoshihide
Y
D000818:Animals; D002454:Cell Differentiation; D019143:Evolution, Molecular; D005786:Gene Expression Regulation; D053263:Gene Regulatory Networks; D006801:Humans; D051379:Mice; D009000:Monocytes / Q000166:cytology; D009928:Organ Specificity; D051900:Smad3 Protein / Q000378:metabolism; D015534:Trans-Activators / Q000378:metabolism; D014157:Transcription Factors / Q000378:metabolism*
D051900:Smad3 Protein; D015534:Trans-Activators; D014157:Transcription Factors