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Title:
Transcriptional regulatory code of a eukaryotic genome
Authors:
Harbison, Christopher T.; Gordon, D. Benjamin; Lee, Tong Ihn; Rinaldi, Nicola J.; Macisaac, Kenzie D.; Danford, Timothy W.; Hannett, Nancy M.; Tagne, Jean-Bosco; Reynolds, David B.; Yoo, Jane; Jennings, Ezra G.; Zeitlinger, Julia; Pokholok, Dmitry K.; Kellis, Manolis; Rolfe, P. Alex; Takusagawa, Ken T.; Lander, Eric S.; Gifford, David K.; Fraenkel, Ernest; Young, Richard A.
Affiliation:
AA(These authors contributed equally to this work), AB(These authors contributed equally to this work), AC(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AD(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AE(MIT Computer Science and Artificial Intelligence Laboratory, 32 Vassar Street, Cambridge, Massachusetts 02139, USA), AF(MIT Computer Science and Artificial Intelligence Laboratory, 32 Vassar Street, Cambridge, Massachusetts 02139, USA), AG(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AH(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AI(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AJ(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AK(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AL(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AM(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AN(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AO(MIT Computer Science and Artificial Intelligence Laboratory, 32 Vassar Street, Cambridge, Massachusetts 02139, USA), AP(MIT Computer Science and Artificial Intelligence Laboratory, 32 Vassar Street, Cambridge, Massachusetts 02139, USA), AQ(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AR(MIT Computer Science and Artificial Intelligence Laboratory, 32 Vassar Street, Cambridge, Massachusetts 02139, USA), AS(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA), AT(Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, Massachusetts 02142, USA)
Publication:
Nature, Volume 431, Issue 7004, pp. 99-104 (2004). (Nature Homepage)
Publication Date:
09/2004
Origin:
NATURE
Abstract Copyright:
(c) 2004: Nature
DOI:
10.1038/nature02800
Bibliographic Code:
2004Natur.431...99H

Abstract

DNA-binding transcriptional regulators interpret the genome's regulatory code by binding to specific sequences to induce or repress gene expression. Comparative genomics has recently been used to identify potential cis-regulatory sequences within the yeast genome on the basis of phylogenetic conservation, but this information alone does not reveal if or when transcriptional regulators occupy these binding sites. We have constructed an initial map of yeast's transcriptional regulatory code by identifying the sequence elements that are bound by regulators under various conditions and that are conserved among Saccharomyces species. The organization of regulatory elements in promoters and the environment-dependent use of these elements by regulators are discussed. We find that environment-specific use of regulatory elements predicts mechanistic models for the function of a large population of yeast's transcriptional regulators.
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