DISTILLER: a data integration framework to reveal condition dependency of complex regulons in Escherichia coli
| Autor: | Julio Collado-Vides, Sigrid C. J. De Keersmaecker, Ami De Weerdt, Bart De Moor, Kathleen Marchal, Thomas Dhollander, Inge Thijs, Jos Vanderleyden, Kristof Engelen, Geert Schoofs, Karen Lemmens, Tijl De Bie |
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| Jazyk: | angličtina |
| Předmět: |
Chromatin Immunoprecipitation
Dependency (UML) DNA-BINDING FNR Gene regulatory network Regulator Method PROTEIN Inference Computational biology Biology ART. NO. E15 Nitrate reductase medicine.disease_cause Regulon EXPRESSION PROFILES Escherichia coli medicine GLOBAL REGULATORS Gene Regulatory Networks Genetics Modularity (networks) SISTA Computational Biology Biology and Life Sciences Gene Expression Regulation Bacterial TRANSCRIPTIONAL REGULATORY NETWORK GENE LOW-PH MICROARRAY DATA Software Transcription Factors |
| Zdroj: | GENOME BIOLOGY Genome Biology |
| ISSN: | 1465-6906 1474-760X |
| DOI: | 10.1186/gb-2009-10-3-r27 |
| Popis: | DISTILLER, a data integration framework for the inference of transcriptional module networks, is presented and used to investigate the condition dependency and modularity in Escherichia coli networks. We present DISTILLER, a data integration framework for the inference of transcriptional module networks. Experimental validation of predicted targets for the well-studied fumarate nitrate reductase regulator showed the effectiveness of our approach in Escherichia coli. In addition, the condition dependency and modularity of the inferred transcriptional network was studied. Surprisingly, the level of regulatory complexity seemed lower than that which would be expected from RegulonDB, indicating that complex regulatory programs tend to decrease the degree of modularity. |
| Databáze: | OpenAIRE |
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