Revealing modular organization in the yeast transcriptional network

Details

Serval ID
serval:BIB_FFA16176D4F3
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Revealing modular organization in the yeast transcriptional network
Journal
Nature Genetics
Author(s)
Ihmels  J., Friedlander  G., Bergmann  S., Sarig  O., Ziv  Y., Barkai  N.
ISSN
1061-4036 (Print)
Publication state
Published
Issued date
08/2002
Volume
31
Number
4
Pages
370-7
Notes
Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, P.H.S. --- Old month value: Aug
Abstract
Standard clustering methods can classify genes successfully when applied to relatively small data sets, but have limited use in the analysis of large-scale expression data, mainly owing to their assignment of a gene to a single cluster. Here we propose an alternative method for the global analysis of genome-wide expression data. Our approach assigns genes to context-dependent and potentially overlapping 'transcription modules', thus overcoming the main limitations of traditional clustering methods. We use our method to elucidate regulatory properties of cellular pathways and to characterize cis-regulatory elements. By applying our algorithm systematically to all of the available expression data on Saccharomyces cerevisiae, we identify a comprehensive set of overlapping transcriptional modules. Our results provide functional predictions for numerous genes, identify relations between modules and present a global view on the transcriptional network.
Keywords
*Algorithms Citric Acid Cycle *Gene Expression Regulation, Fungal Models, Genetic Regulatory Sequences, Nucleic Acid Reproducibility of Results *Transcription, Genetic Yeasts/*genetics/metabolism
Pubmed
Web of science
Create date
24/01/2008 15:10
Last modification date
20/08/2019 17:29
Usage data