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Results: 1 to 20 of 82

Similar articles for PubMed (Select 19074493)

1.

Towards the integrated analysis, visualization and reconstruction of microbial gene regulatory networks.

Baumbach J, Tauch A, Rahmann S.

Brief Bioinform. 2009 Jan;10(1):75-83. doi: 10.1093/bib/bbn055. Epub 2008 Dec 12.

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3.

CoryneRegNet: an ontology-based data warehouse of corynebacterial transcription factors and regulatory networks.

Baumbach J, Brinkrolf K, Czaja LF, Rahmann S, Tauch A.

BMC Genomics. 2006 Feb 14;7:24.

4.

Integrated analysis and reconstruction of microbial transcriptional gene regulatory networks using CoryneRegNet.

Baumbach J, Wittkop T, Kleindt CK, Tauch A.

Nat Protoc. 2009;4(6):992-1005. doi: 10.1038/nprot.2009.81.

PMID:
19498379
5.

Linking Cytoscape and the corynebacterial reference database CoryneRegNet.

Baumbach J, Apeltsin L.

BMC Genomics. 2008 Apr 21;9:184. doi: 10.1186/1471-2164-9-184.

6.

CoryneRegNet 6.0--Updated database content, new analysis methods and novel features focusing on community demands.

Pauling J, Röttger R, Tauch A, Azevedo V, Baumbach J.

Nucleic Acids Res. 2012 Jan;40(Database issue):D610-4. doi: 10.1093/nar/gkr883. Epub 2011 Nov 12.

7.

CoryneRegNet 3.0--an interactive systems biology platform for the analysis of gene regulatory networks in corynebacteria and Escherichia coli.

Baumbach J, Wittkop T, Rademacher K, Rahmann S, Brinkrolf K, Tauch A.

J Biotechnol. 2007 Apr 30;129(2):279-89. Epub 2006 Dec 20.

PMID:
17229482
8.

From Corynebacterium glutamicum to Mycobacterium tuberculosis--towards transfers of gene regulatory networks and integrated data analyses with MycoRegNet.

Krawczyk J, Kohl TA, Goesmann A, Kalinowski J, Baumbach J.

Nucleic Acids Res. 2009 Aug;37(14):e97. doi: 10.1093/nar/gkp453. Epub 2009 Jun 3.

9.

CoryneCenter - an online resource for the integrated analysis of corynebacterial genome and transcriptome data.

Neuweger H, Baumbach J, Albaum S, Bekel T, Dondrup M, Hüser AT, Kalinowski J, Oehm S, Pühler A, Rahmann S, Weile J, Goesmann A.

BMC Syst Biol. 2007 Nov 22;1:55.

10.

SYSTOMONAS--an integrated database for systems biology analysis of Pseudomonas.

Choi C, Münch R, Leupold S, Klein J, Siegel I, Thielen B, Benkert B, Kucklick M, Schobert M, Barthelmes J, Ebeling C, Haddad I, Scheer M, Grote A, Hiller K, Bunk B, Schreiber K, Retter I, Schomburg D, Jahn D.

Nucleic Acids Res. 2007 Jan;35(Database issue):D533-7.

11.

RhizoRegNet--a database of rhizobial transcription factors and regulatory networks.

Krol E, Blom J, Winnebald J, Berhörster A, Barnett MJ, Goesmann A, Baumbach J, Becker A.

J Biotechnol. 2011 Aug 20;155(1):127-34. doi: 10.1016/j.jbiotec.2010.11.004. Epub 2010 Nov 16.

PMID:
21087643
12.

RegPrecise 3.0--a resource for genome-scale exploration of transcriptional regulation in bacteria.

Novichkov PS, Kazakov AE, Ravcheev DA, Leyn SA, Kovaleva GY, Sutormin RA, Kazanov MD, Riehl W, Arkin AP, Dubchak I, Rodionov DA.

BMC Genomics. 2013 Nov 1;14:745. doi: 10.1186/1471-2164-14-745.

13.

The transcriptional regulatory network of Corynebacterium jeikeium K411 and its interaction with metabolic routes contributing to human body odor formation.

Barzantny H, Schröder J, Strotmeier J, Fredrich E, Brune I, Tauch A.

J Biotechnol. 2012 Jun 15;159(3):235-48. doi: 10.1016/j.jbiotec.2012.01.021. Epub 2012 Feb 9.

PMID:
22342369
14.

An integrative approach to inferring gene regulatory module networks.

Baitaluk M, Kozhenkov S, Ponomarenko J.

PLoS One. 2012;7(12):e52836. doi: 10.1371/journal.pone.0052836. Epub 2012 Dec 20.

15.

VirtualPlant: a software platform to support systems biology research.

Katari MS, Nowicki SD, Aceituno FF, Nero D, Kelfer J, Thompson LP, Cabello JM, Davidson RS, Goldberg AP, Shasha DE, Coruzzi GM, Gutiérrez RA.

Plant Physiol. 2010 Feb;152(2):500-15. doi: 10.1104/pp.109.147025. Epub 2009 Dec 9.

16.

The Gaggle: an open-source software system for integrating bioinformatics software and data sources.

Shannon PT, Reiss DJ, Bonneau R, Baliga NS.

BMC Bioinformatics. 2006 Mar 28;7:176.

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18.

GeneNotes--a novel information management software for biologists.

Hong P, Wong WH.

BMC Bioinformatics. 2005 Feb 1;6:20.

19.

SpotXplore: a Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks.

Westenberg MA, Roerdink JB, Kuipers OP, van Hijum SA.

Bioinformatics. 2010 Nov 15;26(22):2922-3. doi: 10.1093/bioinformatics/btq535. Epub 2010 Sep 21.

20.

RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions.

Salgado H, Gama-Castro S, Peralta-Gil M, Díaz-Peredo E, Sánchez-Solano F, Santos-Zavaleta A, Martínez-Flores I, Jiménez-Jacinto V, Bonavides-Martínez C, Segura-Salazar J, Martínez-Antonio A, Collado-Vides J.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D394-7.

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