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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Extensive cross-talk and global regulators identified from an analysis of the integrated transcriptional and signaling network in Escherichia coli

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Author(s):
Antiqueira, Lucas [1] ; Janga, Sarath Chandra [2, 3] ; Costa, Luciano da Fontoura [4]
Total Authors: 3
Affiliation:
[1] Univ Sao Paulo, Inst Math & Comp Sci, BR-13560970 Sao Carlos, SP - Brazil
[2] Indiana Univ Purdue Univ, Sch Informat, Indianapolis, IN 46202 - USA
[3] Indiana Univ, Sch Med, Ctr Computat Biol & Bioinformat, Indianapolis, IN 46202 - USA
[4] Univ Sao Paulo, Inst Phys Sao Carlos, BR-13560970 Sao Carlos, SP - Brazil
Total Affiliations: 4
Document type: Journal article
Source: MOLECULAR BIOSYSTEMS; v. 8, n. 11, p. 3028-3035, 2012.
Web of Science Citations: 3
Abstract

To understand the regulatory dynamics of transcription factors (TFs) and their interplay with other cellular components we have integrated transcriptional, protein-protein and the allosteric or equivalent interactions which mediate the physiological activity of TFs in Escherichia coli. To study this integrated network we computed a set of network measurements followed by principal component analysis (PCA), investigated the correlations between network structure and dynamics, and carried out a procedure for motif detection. In particular, we show that outliers identified in the integrated network based on their network properties correspond to previously characterized global transcriptional regulators. Furthermore, outliers are highly and widely expressed across conditions, thus supporting their global nature in controlling many genes in the cell. Motifs revealed that TFs not only interact physically with each other but also obtain feedback from signals delivered by signaling proteins supporting the extensive cross-talk between different types of networks. Our analysis can lead to the development of a general framework for detecting and understanding global regulatory factors in regulatory networks and reinforces the importance of integrating multiple types of interactions in underpinning the interrelationships between them. (AU)

FAPESP's process: 05/00587-5 - Mesh (graph) modeling and techniques of pattern recognition: structure, dynamics and applications
Grantee:Roberto Marcondes Cesar Junior
Support Opportunities: Research Projects - Thematic Grants