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The design of transcription-factor binding sites is affected by combinatorial regulation
Yonatan Bilu, Naama Barkai
Genome Biol. 2005; 6(12): R103. Published online 2005 December 2. doi: 10.1186/gb-2005-6-12-r103
PMCID:
PMC1414079
Abstract Full Text PDF–219K Supplementary Material
 Is Cited by the Following 12 Articles in this Archive:
Integrated Genome-Scale Prediction of Detrimental Mutations in Transcription Networks
Mirko Francesconi, Rob Jelier, Ben Lehner
PLoS Genet. 2011 May; 7(5): e1002077. Published online 2011 May 26. doi: 10.1371/journal.pgen.1002077
PMCID:
PMC3102745
Abstract Full Text PDF–1001K Supplementary Material
Core promoter T-blocks correlate with gene expression levels in C. elegans
Vladislav Grishkevich, Tamar Hashimshony, Itai Yanai
Genome Res. 2011 May; 21(5): 707–717. doi: 10.1101/gr.113381.110
PMCID:
PMC3083087
Abstract Full Text PDF–1.3M
Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation
Gong Zhang, Radoslaw Lukoszek, Bernd Mueller-Roeber, Zoya Ignatova
Nucleic Acids Res. 2011 April; 39(8): 3331–3339. Published online 2010 December 7. doi: 10.1093/nar/gkq1257
PMCID:
PMC3082873
Abstract Full Text PDF–3.0M Supplementary Material
Epistatic relationships reveal the functional organization of yeast transcription factors
Jiashun Zheng, Joris J Benschop, Michael Shales, Patrick Kemmeren, Jack Greenblatt, Gerard Cagney, Frank Holstege, Hao Li, Nevan J Krogan
Mol Syst Biol. 2010; 6: 420. Published online 2010 October 19. doi: 10.1038/msb.2010.77
PMCID:
PMC2990640
Abstract Full Text PDF–3.5M Supplementary Material
Redundancy and the Evolution of Cis-Regulatory Element Multiplicity
Tiago Paixão, Ricardo B. R. Azevedo
PLoS Comput Biol. 2010 July; 6(7): e1000848. Published online 2010 July 8. doi: 10.1371/journal.pcbi.1000848
PMCID:
PMC2900288
Abstract Full Text PDF–425K Supplementary Material
Protein evolution in yeast transcription factor subnetworks
Yong Wang, Eric A. Franzosa, Xiang-Sun Zhang, Yu Xia
Nucleic Acids Res. 2010 October; 38(18): 5959–5969. Published online 2010 May 13. doi: 10.1093/nar/gkq353
PMCID:
PMC2952844
Abstract Full Text PDF–457K Supplementary Material
Impact of DNA-binding position variants on yeast gene expression
Krishna B. S. Swamy, Chung-Yi Cho, Sufeng Chiang, Zing Tsung-Yeh Tsai, Huai-Kuang Tsai
Nucleic Acids Res. 2009 November; 37(21): 6991–7001. Published online 2009 November. doi: 10.1093/nar/gkp743
PMCID:
PMC2790881
Abstract Full Text PDF–463K Supplementary Material
Mechanisms and Evolution of Control Logic in Prokaryotic Transcriptional Regulation
Sacha A. F. T. van Hijum, Marnix H. Medema, Oscar P. Kuipers
Microbiol Mol Biol Rev. 2009 September; 73(3): 481–509. doi: 10.1128/MMBR.00037-08
PMCID:
PMC2738135
Abstract Full Text PDF–4.4M
In Vivo Interference with AtTCP20 Function Induces Severe Plant Growth Alterations and Deregulates the Expression of Many Genes Important for Development
Christine Hervé, Patrick Dabos, Claude Bardet, Alain Jauneau, Marie Christine Auriac, Agnès Ramboer, Fabrice Lacout, Dominique Tremousaygue
Plant Physiol. 2009 March; 149(3): 1462–1477. doi: 10.1104/pp.108.126136
PMCID:
PMC2649380
Abstract Full Text PDF–2.1M Supplementary Material
The role of DNA-binding specificity in the evolution of bacterial regulatory networks
Irma Lozada-Chávez, Vladimir Espinosa Angarica, Julio Collado-Vides, Bruno Contreras-Moreira
J Mol Biol. Author manuscript; available in PMC 2009 June 6.
Published in final edited form as: J Mol Biol. 2008 June 6; 379(3): 627–643. Published online 2008 April 9. doi: 10.1016/j.jmb.2008.04.008
PMCID:
PMC2491489
Abstract Full Text PDF–1.1M Supplementary Material
Inferring condition-specific transcription factor function from DNA binding and gene expression data
Rachel Patton McCord, Michael F Berger, Anthony A Philippakis, Martha L Bulyk
Mol Syst Biol. 2007; 3: 100. Published online 2007 April 17. doi: 10.1038/msb4100140
Correction in:
Mol Syst Biol. 2010; 6: 362.
PMCID:
PMC1865582
Abstract Full Text PDF–355K Supplementary Material Correction
Conservation of Expression and Sequence of Metabolic Genes Is Reflected by Activity Across Metabolic States
Yonatan Bilu, Tomer Shlomi, Naama Barkai, Eytan Ruppin
PLoS Comput Biol. 2006 August; 2(8): e106. Prepublished online 2006 July 6. Published online 2006 August 18. doi: 10.1371/journal.pcbi.0020106
PMCID:
PMC1550272
Abstract Full Text PDF–247K Supplementary Material
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