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PMID: 20211142 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

An atlas of combinatorial transcriptional regulation in mouse and man.

Cell ·Vol. 140 ·No. 5 ·2010-03-05 ·Pages 744-52

Ravasi T, Suzuki H, Cannistraci CV, Katayama S, Bajic VB, Tan K, Akalin A, Schmeier S, Kanamori-Katayama M, Bertin N, Carninci P, Daub CO, Forrest AR, Gough J, Grimmond S, Han JH, Hashimoto T, Hide W, Hofmann O, Kamburov A, Kaur M, Kawaji H, Kubosaki A, Lassmann T, van Nimwegen E, MacPherson CR, Ogawa C, Radovanovic A, Schwartz A, Teasdale RD, Tegnér J, Lenhard B, Teichmann SA, Arakawa T, Ninomiya N, Murakami K, Tagami M, Fukuda S, Imamura K, Kai C, Ishihara R, Kitazume Y, Kawai J, Hume DA, Ideker T, Hayashizaki Y

Abstract

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.

MeSH Terms
Animals Cell Differentiation Evolution, Molecular Gene Expression Regulation Gene Regulatory Networks Humans Mice Monocytes/cytology Organ Specificity Smad3 Protein/metabolism Trans-Activators/metabolism Transcription Factors/metabolism
Chemicals
Smad3 Protein Trans-Activators Transcription Factors
Authors & Affiliations
46 authors, click to expand affiliations / ORCID
Ravasi Timothy
The FANTOM Consortium, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.
Suzuki Harukazu
Cannistraci Carlo Vittorio
Katayama Shintaro
Bajic Vladimir B
Tan Kai
Akalin Altuna
Schmeier Sebastian
Kanamori-Katayama Mutsumi
Bertin Nicolas
Carninci Piero
Daub Carsten O
Forrest Alistair R R
Gough Julian
Grimmond Sean
Han Jung-Hoon
Hashimoto Takehiro
Hide Winston
Hofmann Oliver
Kamburov Atanas
Kaur Mandeep
Kawaji Hideya
Kubosaki Atsutaka
Lassmann Timo
van Nimwegen Erik
MacPherson Cameron Ross
Ogawa Chihiro
Radovanovic Aleksandar
Schwartz Ariel
Teasdale Rohan D
Tegnér Jesper
Lenhard Boris
Teichmann Sarah A
Arakawa Takahiro
Ninomiya Noriko
Murakami Kayoko
Tagami Michihira
Fukuda Shiro
Imamura Kengo
Kai Chikatoshi
Ishihara Ryoko
Kitazume Yayoi
Kawai Jun
Hume David A
Ideker Trey
Hayashizaki Yoshihide
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Article Info
Journal
Cell
Abbr.
Cell
ISSN
1097-4172
DOI
10.1016/j.cell.2010.01.044
Published
2010-03-05
Pages
744-52
Language
English
Region
United States
NLM ID
0413066
PMCID
PMC2836267
Subset
IM
Grants
NIMH NIH HHS · P30 MH062261-02 · United States
NIMH NIH HHS · P30 MH062261-06A1 · United States
NIMH NIH HHS · P30 MH062261-07 · United States
NIMH NIH HHS · P30 MH062261 · United States
Biotechnology and Biological Sciences Research Council · BB/G022771/1 · United Kingdom
NIMH NIH HHS · P30 MH062261-03 · United States
Medical Research Council · MC_U105161047 · United Kingdom
NIMH NIH HHS · P30 MH062261-04 · United States
NIMH NIH HHS · MH062261 · United States
NIMH NIH HHS · P30 MH062261-099009 · United States
NIMH NIH HHS · P30 MH062261-05S1 · United States
NIMH NIH HHS · P30 MH062261-06A19009 · United States
NIMH NIH HHS · P30 MH062261-079009 · United States
NIMH NIH HHS · P30 MH062261-08 · United States
NIMH NIH HHS · P30 MH062261-05 · United States
NIMH NIH HHS · P30 MH062261-089009 · United States
NIMH NIH HHS · P30 MH062261-09 · United States
NIMH NIH HHS · P30 MH062261-01 · United States
Corrections
ErratumIn
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PMID: 20440881
External Links
PubMed source DOI: 10.1016/j.cell.2010.01.044 PMC Full Text View journal details
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