ArticlePLoS computational biology2006
Dynamic changes in subgraph preference profiles of crucial transcription factors.
Article in PLoS computational biology, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Article
- Unraveling gene regulatory networks from time-resolved gene expression data - a measures comparison study.BMC bioinformatics · 2011Article
- Investigating the validity of current network analysis on static conglomerate networks by protein network stratification.BMC bioinformatics · 2010Article
- Accuracy and application of the motif expression decomposition method in dissecting transcriptional regulation.Nucleic acids research · 2008Article
- Bioinformatics in China: a personal perspective.PLoS computational biology · 2008Review
- Genome-wide analysis of transcriptional dependence and probable target sites for Abf1 and Rap1 in Saccharomyces cerevisiae.Nucleic acids research · 2007Article
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transcription factors with a large number of target genes--transcription hub(s), or THub(s)--are usually crucial components of the regulatory system of a cell, and the different patterns through which they transfer the transcriptional signal to downstream cascades are of great interest. By profiling normalized abundances (A(N)) of basic regulatory patterns of individual THubs in the yeast Saccharomyces cerevisiae transcriptional regulation network under five different cellular states and environmental conditions, we have investigated their preferences for different basic regulatory patterns. Subgraph-normalized abundances downstream of individual THubs often differ significantly from that of the network as a whole, and conversely, certain over-represented subgraphs are not preferred by any THub. The THub preferences changed substantially when the cellular or environmental conditions changed. This switching of regulatory pattern preferences suggests that a change in conditions does not only elicit a change in response by the regulatory network, but also a change in the mechanisms by which the response is mediated. The THub subgraph preference profile thus provides a novel tool for description of the structure and organization between the large-scale exponents and local regulatory patterns.
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Registered trials
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