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Items: 1 to 20 of 214

1.

Reconstruction of microbial transcriptional regulatory networks.

Herrgård MJ, Covert MW, Palsson BØ.

Curr Opin Biotechnol. 2004 Feb;15(1):70-7. Review.

PMID:
15102470
2.

Use of genome-scale microbial models for metabolic engineering.

Patil KR, Akesson M, Nielsen J.

Curr Opin Biotechnol. 2004 Feb;15(1):64-9. Review.

PMID:
15102469
3.
4.

Regulation of gene expression in flux balance models of metabolism.

Covert MW, Schilling CH, Palsson B.

J Theor Biol. 2001 Nov 7;213(1):73-88.

PMID:
11708855
5.

Microbial regulatory and metabolic networks.

Cho BK, Charusanti P, Herrgård MJ, Palsson BO.

Curr Opin Biotechnol. 2007 Aug;18(4):360-4. Epub 2007 Aug 24. Review.

PMID:
17719767
6.

The transcriptional regulatory network of the amino acid producer Corynebacterium glutamicum.

Brinkrolf K, Brune I, Tauch A.

J Biotechnol. 2007 Apr 30;129(2):191-211. Epub 2006 Dec 20. Review.

PMID:
17227685
7.

Evolution of transcriptional regulatory networks in microbial genomes.

Gelfand MS.

Curr Opin Struct Biol. 2006 Jun;16(3):420-9. Epub 2006 May 2. Review.

PMID:
16650982
8.

SIRENE: supervised inference of regulatory networks.

Mordelet F, Vert JP.

Bioinformatics. 2008 Aug 15;24(16):i76-82. doi: 10.1093/bioinformatics/btn273.

9.

Functional states of the genome-scale Escherichia coli transcriptional regulatory system.

Gianchandani EP, Joyce AR, Palsson BØ, Papin JA.

PLoS Comput Biol. 2009 Jun;5(6):e1000403. doi: 10.1371/journal.pcbi.1000403. Epub 2009 Jun 5.

10.

A comparative evolutionary study of transcription networks. The global role of feedback and hierachical structures.

Sellerio AL, Bassetti B, Isambert H, Cosentino Lagomarsino M.

Mol Biosyst. 2009 Feb;5(2):170-9. doi: 10.1039/b815339f. Epub 2008 Nov 25.

PMID:
19156263
11.

Environmental conditions and transcriptional regulation in Escherichia coli: a physiological integrative approach.

Martínez-Antonio A, Salgado H, Gama-Castro S, Gutiérrez-Ríos RM, Jiménez-Jacinto V, Collado-Vides J.

Biotechnol Bioeng. 2003 Dec 30;84(7):743-9.

PMID:
14708114
12.

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.

13.

Regulatory dynamics of standard two-component systems in bacteria.

Olivera BC, Ugalde E, Martínez-Antonio A.

J Theor Biol. 2010 May 21;264(2):560-9. doi: 10.1016/j.jtbi.2010.02.008. Epub 2010 Feb 26.

PMID:
20219478
14.

Mapping regulatory networks in microbial cells.

VanBogelen RA, Greis KD, Blumenthal RM, Tani TH, Matthews RG.

Trends Microbiol. 1999 Aug;7(8):320-8. Review.

PMID:
10431205
15.

Genome-scale microbial in silico models: the constraints-based approach.

Price ND, Papin JA, Schilling CH, Palsson BO.

Trends Biotechnol. 2003 Apr;21(4):162-9. Review.

PMID:
12679064
16.

Context-specific metabolic networks are consistent with experiments.

Becker SA, Palsson BO.

PLoS Comput Biol. 2008 May 16;4(5):e1000082. doi: 10.1371/journal.pcbi.1000082.

17.

Gene regulatory network inference: data integration in dynamic models-a review.

Hecker M, Lambeck S, Toepfer S, van Someren E, Guthke R.

Biosystems. 2009 Apr;96(1):86-103. doi: 10.1016/j.biosystems.2008.12.004. Epub 2008 Dec 27. Review.

PMID:
19150482
18.

Molecular networks in microarray analysis.

Sivachenko AY, Yuryev A, Daraselia N, Mazo I.

J Bioinform Comput Biol. 2007 Apr;5(2B):429-56. Review.

PMID:
17636854
19.

Genome-scale bacterial transcriptional regulatory networks: reconstruction and integrated analysis with metabolic models.

Faria JP, Overbeek R, Xia F, Rocha M, Rocha I, Henry CS.

Brief Bioinform. 2014 Jul;15(4):592-611.

PMID:
23422247
20.

Transcriptional regulation in constraints-based metabolic models of Escherichia coli.

Covert MW, Palsson BØ.

J Biol Chem. 2002 Aug 2;277(31):28058-64. Epub 2002 May 10.

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