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

Baumbach J, Brinkrolf K, Czaja LF, Rahmann S, Tauch A (2006)
BMC Genomics 7(1): 24.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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URN
urn:nbn:de:0070-pub-17736326
Autor*in
Baumbach, Jan; Brinkrolf, KarinaUniBi; Czaja, Lisa F.; Rahmann, Sven; Tauch, AndreasUniBi
Einrichtung
Centrum für Biotechnologie > Graduate Center
Technische Fakultät > AG Genominformatik
Centrum für Biotechnologie > Arbeitsgruppe A. Tauch
Erscheinungsjahr
2006
Zeitschriftentitel
BMC Genomics
Band
7
Ausgabe
1
Art.-Nr.
24
ISSN
1471-2164
Page URI
https://pub.uni-bielefeld.de/record/1773632

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Baumbach J, Brinkrolf K, Czaja LF, Rahmann S, Tauch A. CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks. BMC Genomics. 2006;7(1): 24.
Baumbach, J., Brinkrolf, K., Czaja, L. F., Rahmann, S., & Tauch, A. (2006). CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks. BMC Genomics, 7(1), 24. https://doi.org/10.1186/1471-2164-7-24
Baumbach, Jan, Brinkrolf, Karina, Czaja, Lisa F., Rahmann, Sven, and Tauch, Andreas. 2006. “CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks”. BMC Genomics 7 (1): 24.
Baumbach, J., Brinkrolf, K., Czaja, L. F., Rahmann, S., and Tauch, A. (2006). CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks. BMC Genomics 7:24.
Baumbach, J., et al., 2006. CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks. BMC Genomics, 7(1): 24.
J. Baumbach, et al., “CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks”, BMC Genomics, vol. 7, 2006, : 24.
Baumbach, J., Brinkrolf, K., Czaja, L.F., Rahmann, S., Tauch, A.: CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks. BMC Genomics. 7, : 24 (2006).
Baumbach, Jan, Brinkrolf, Karina, Czaja, Lisa F., Rahmann, Sven, and Tauch, Andreas. “CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks”. BMC Genomics 7.1 (2006): 24.
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28 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Functional architecture and global properties of the Corynebacterium glutamicum regulatory network: Novel insights from a dataset with a high genomic coverage.
Freyre-González JA, Tauch A., J Biotechnol 257(), 2017
PMID: 27829123
Regulons of global transcription factors in Corynebacterium glutamicum.
Toyoda K, Inui M., Appl Microbiol Biotechnol 100(1), 2016
PMID: 26496920
CMRegNet-An interspecies reference database for corynebacterial and mycobacterial regulatory networks.
Abreu VA, Almeida S, Tiwari S, Hassan SS, Mariano D, Silva A, Baumbach J, Azevedo V, Röttger R., BMC Genomics 16(), 2015
PMID: 26062809
Transcriptome sequencing revealed the transcriptional organization at ribosome-mediated attenuation sites in Corynebacterium glutamicum and identified a novel attenuator involved in aromatic amino acid biosynthesis.
Neshat A, Mentz A, Rückert C, Kalinowski J., J Biotechnol 190(), 2014
PMID: 24910972
Transcriptional control of the F0F1-ATP synthase operon of Corynebacterium glutamicum: SigmaH factor binds to its promoter and regulates its expression at different pH values.
Barriuso-Iglesias M, Barreiro C, Sola-Landa A, Martín JF., Microb Biotechnol 6(2), 2013
PMID: 23298179
Genome wide identification of Acidithiobacillus ferrooxidans (ATCC 23270) transcription factors and comparative analysis of ArsR and MerR metal regulators.
Hödar C, Moreno P, di Genova A, Latorre M, Reyes-Jara A, Maass A, González M, Cambiazo V., Biometals 25(1), 2012
PMID: 21830017
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 40(database issue), 2012
PMID: 22080556
Mitochondrial DNA as effective molecular markers for the genetic variation and phylogeny of the family Osteoglossidae.
Mu XD, Wang XJ, Song HM, Yang YX, Luo D, Gu DE, Xu M, Liu C, Luo JR, Hu YC., Gene 511(2), 2012
PMID: 23036711
ClpR protein-like regulator specifically recognizes RecA protein-independent promoter motif and broadly regulates expression of DNA damage-inducible genes in mycobacteria.
Wang Y, Huang Y, Xue C, He Y, He ZG., J Biol Chem 286(36), 2011
PMID: 21771781
The Zur regulon of Corynebacterium glutamicum ATCC 13032.
Schröder J, Jochmann N, Rodionov DA, Tauch A., BMC Genomics 11(), 2010
PMID: 20055984
The transcriptional regulators RamA and RamB are involved in the regulation of glycogen synthesis in Corynebacterium glutamicum.
Seibold GM, Hagmann CT, Schietzel M, Emer D, Auchter M, Schreiner J, Eikmanns BJ., Microbiology 156(pt 4), 2010
PMID: 20056699
Transcriptional regulation of gene expression in Corynebacterium glutamicum: the role of global, master and local regulators in the modular and hierarchical gene regulatory network.
Schröder J, Tauch A., FEMS Microbiol Rev 34(5), 2010
PMID: 20491930
Towards the integrated analysis, visualization and reconstruction of microbial gene regulatory networks.
Baumbach J, Tauch A, Rahmann S., Brief Bioinform 10(1), 2009
PMID: 19074493
Regulation by transcription factors in bacteria: beyond description.
Balleza E, López-Bojorquez LN, Martínez-Antonio A, Resendis-Antonio O, Lozada-Chávez I, Balderas-Martínez YI, Encarnación S, Collado-Vides J., FEMS Microbiol Rev 33(1), 2009
PMID: 19076632
Integrated analysis and reconstruction of microbial transcriptional gene regulatory networks using CoryneRegNet.
Baumbach J, Wittkop T, Kleindt CK, Tauch A., Nat Protoc 4(6), 2009
PMID: 19498379
Reliable transfer of transcriptional gene regulatory networks between taxonomically related organisms.
Baumbach J, Rahmann S, Tauch A., BMC Syst Biol 3(), 2009
PMID: 19146695
EMMA 2--a MAGE-compliant system for the collaborative analysis and integration of microarray data.
Dondrup M, Albaum SP, Griebel T, Henckel K, Jünemann S, Kahlke T, Kleindt CK, Küster H, Linke B, Mertens D, Mittard-Runte V, Neuweger H, Runte KJ, Tauch A, Tille F, Pühler A, Goesmann A., BMC Bioinformatics 10(), 2009
PMID: 19200358
Integration of prostate cancer clinical data using an ontology.
Min H, Manion FJ, Goralczyk E, Wong YN, Ross E, Beck JR., J Biomed Inform 42(6), 2009
PMID: 19497389
The LacI/GalR family transcriptional regulator UriR negatively controls uridine utilization of Corynebacterium glutamicum by binding to catabolite-responsive element (cre)-like sequences.
Brinkrolf K, Plöger S, Solle S, Brune I, Nentwich SS, Hüser AT, Kalinowski J, Pühler A, Tauch A., Microbiology 154(pt 4), 2008
PMID: 18375800
Linking Cytoscape and the corynebacterial reference database CoryneRegNet.
Baumbach J, Apeltsin L., BMC Genomics 9(), 2008
PMID: 18426593
The transcriptional regulatory network of the amino acid producer Corynebacterium glutamicum.
Brinkrolf K, Brune I, Tauch A., J Biotechnol 129(2), 2007
PMID: 17227685
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 129(2), 2007
PMID: 17229482
The IclR-type transcriptional repressor LtbR regulates the expression of leucine and tryptophan biosynthesis genes in the amino acid producer Corynebacterium glutamicum.
Brune I, Jochmann N, Brinkrolf K, Hüser AT, Gerstmeir R, Eikmanns BJ, Kalinowski J, Pühler A, Tauch A., J Bacteriol 189(7), 2007
PMID: 17259312
The extracytoplasmic function-type sigma factor SigM of Corynebacterium glutamicum ATCC 13032 is involved in transcription of disulfide stress-related genes.
Nakunst D, Larisch C, Hüser AT, Tauch A, Pühler A, Kalinowski J., J Bacteriol 189(13), 2007
PMID: 17483229
Comparative genomic reconstruction of transcriptional regulatory networks in bacteria.
Rodionov DA., Chem Rev 107(8), 2007
PMID: 17636889
Large scale clustering of protein sequences with FORCE -A layout based heuristic for weighted cluster editing.
Wittkop T, Baumbach J, Lobo FP, Rahmann S., BMC Bioinformatics 8(), 2007
PMID: 17941985
CoryneRegNet 4.0 - A reference database for corynebacterial gene regulatory networks.
Baumbach J., BMC Bioinformatics 8(), 2007
PMID: 17986320
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 1(), 2007
PMID: 18034885

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