The Soft Touch: Low-Affinity Transcription Factor Binding Sites in Development and Evolution.
暂无分享,去创建一个
[1] Hernan G. Garcia,et al. Enhancer additivity and non-additivity are determined by enhancer strength in the Drosophila embryo , 2015, eLife.
[2] J. Delabie,et al. Comprehensive genome-wide transcription factor analysis reveals that a combination of high affinity and low affinity DNA binding is needed for human gene regulation , 2015, BMC Genomics.
[3] R. Mann,et al. Low Affinity Binding Site Clusters Confer Hox Specificity and Regulatory Robustness , 2015, Cell.
[4] Wesley R. Legant,et al. 3D imaging of Sox2 enhancer clusters in embryonic stem cells , 2014, eLife.
[5] Mikhail Spivakov. Spurious transcription factor binding: Non-functional or genetically redundant? , 2014, BioEssays : news and reviews in molecular, cellular and developmental biology.
[6] Manolis Kellis,et al. Systematic discovery and characterization of regulatory motifs in ENCODE TF binding experiments , 2013, Nucleic acids research.
[7] Andrea I. Ramos,et al. Low-affinity transcription factor binding sites shape morphogen responses and enhancer evolution , 2013, Philosophical Transactions of the Royal Society B: Biological Sciences.
[8] Michael D. Wilson,et al. Cooperativity and Rapid Evolution of Cobound Transcription Factors in Closely Related Mammals , 2013, Cell.
[9] Laura E. DeMare,et al. The Evolution of Lineage-Specific Regulatory Activities in the Human Embryonic Limb , 2013, Cell.
[10] M. Bulyk,et al. Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape. , 2013, Cell reports.
[11] James B. Brown,et al. DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila , 2012, Proceedings of the National Academy of Sciences.
[12] B. J. Hwang,et al. Regulatory regions of the C elegans genome contain more low-affinity REF-1 transcription-factor binding sites than high-affinity sites , 2012, Genes & Genomics.
[13] Data production leads,et al. An integrated encyclopedia of DNA elements in the human genome , 2012 .
[14] Raymond K. Auerbach,et al. An Integrated Encyclopedia of DNA Elements in the Human Genome , 2012, Nature.
[15] ENCODEConsortium,et al. An Integrated Encyclopedia of DNA Elements in the Human Genome , 2012, Nature.
[16] Martha L. Bulyk,et al. Molecular mechanism underlying the regulatory specificity of a Drosophila homeodomain protein that specifies myoblast identity , 2012, Development.
[17] Saurabh Sinha,et al. Evolutionary origins of transcription factor binding site clusters. , 2012, Molecular biology and evolution.
[18] Antoine M. van Oijen,et al. Sequence-dependent sliding kinetics of p53 , 2012, Proceedings of the National Academy of Sciences.
[19] R. Mann,et al. Cofactor Binding Evokes Latent Differences in DNA Binding Specificity between Hox Proteins , 2011, Cell.
[20] Martha L Bulyk,et al. Precise temporal control of the eye regulatory gene Pax6 via enhancer-binding site affinity. , 2010, Genes & development.
[21] Justin Crocker,et al. Dynamic evolution of precise regulatory encodings creates the clustered site signature of enhancers , 2010, Nature communications.
[22] Esther T. Chan,et al. Conservation and regulatory associations of a wide affinity range of mouse transcription factor binding sites. , 2010, Genomics.
[23] Lior Pachter,et al. Binding Site Turnover Produces Pervasive Quantitative Changes in Transcription Factor Binding between Closely Related Drosophila Species , 2010, PLoS biology.
[24] Guido Tiana,et al. Noncooperative interactions between transcription factors and clustered DNA binding sites enable graded transcriptional responses to environmental inputs. , 2010, Molecular cell.
[25] Richard W. Lusk,et al. Evolutionary Mirages: Selection on Binding Site Composition Creates the Illusion of Conserved Grammars in Drosophila Enhancers , 2010, PLoS genetics.
[26] L. Mirny,et al. Different gene regulation strategies revealed by analysis of binding motifs. , 2009, Trends in genetics : TIG.
[27] Daniel E. Newburger,et al. Diversity and Complexity in DNA Recognition by Transcription Factors , 2009, Science.
[28] Daniel E. Newburger,et al. Variation in Homeodomain DNA Binding Revealed by High-Resolution Analysis of Sequence Preferences , 2008, Cell.
[29] G. Stormo,et al. Analysis of Homeodomain Specificities Allows the Family-wide Prediction of Preferred Recognition Sites , 2008, Cell.
[30] D. W. Knowles,et al. Transcription Factors Bind Thousands of Active and Inactive Regions in the Drosophila Blastoderm , 2008, PLoS biology.
[31] E. Segal,et al. Predicting expression patterns from regulatory sequence in Drosophila segmentation , 2008, Nature.
[32] Alex A. Pollen,et al. cis-Regulatory Changes in Kit Ligand Expression and Parallel Evolution of Pigmentation in Sticklebacks and Humans , 2007, Cell.
[33] J. Elf,et al. Probing Transcription Factor Dynamics at the Single-Molecule Level in a Living Cell , 2007, Science.
[34] Amos Tanay,et al. Extensive low-affinity transcriptional interactions in the yeast genome. , 2006, Genome research.
[35] David A. Nix,et al. Large-Scale Turnover of Functional Transcription Factor Binding Sites in Drosophila , 2006, PLoS Comput. Biol..
[36] Michael Q. Zhang,et al. A clustering property of highly-degenerate transcription factor binding sites in the mammalian genome , 2006, Nucleic acids research.
[37] John Reinitz,et al. Bicoid cooperative DNA binding is critical for embryonic patterning in Drosophila. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[38] J. Fay,et al. Identification of functional transcription factor binding sites using closely related Saccharomyces species. , 2005, Genome research.
[39] HipHopDX https. The East Side Boyz , 2004 .
[40] J. Brookfield,et al. Expected rates and modes of evolution of enhancer sequences. , 2004, Molecular biology and evolution.
[41] F. Guillemot,et al. Direct and concentration-dependent regulation of the proneural gene Neurogenin2 by Pax6 , 2003, Development.
[42] A. Clark,et al. Evolution of transcription factor binding sites in Mammalian gene regulatory regions: conservation and turnover. , 2002, Molecular biology and evolution.
[43] S. Mango,et al. Regulation of Organogenesis by the Caenorhabditis elegans FoxA Protein PHA-4 , 2002, Science.
[44] Peter W. Markstein,et al. Genome-wide analysis of clustered Dorsal binding sites identifies putative target genes in the Drosophila embryo , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[45] J. Stone,et al. Rapid evolution of cis-regulatory sequences via local point mutations. , 2001, Molecular biology and evolution.
[46] G. Church,et al. Exploring the DNA-binding specificities of zinc fingers with DNA microarrays , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[47] H. Kondoh,et al. Pax6 and SOX2 form a co-DNA-binding partner complex that regulates initiation of lens development. , 2001, Genes & development.
[48] N. Patel,et al. Evidence for stabilizing selection in a eukaryotic enhancer element , 2000, Nature.
[49] H. Jäckle,et al. Cooperative DNA‐binding by Bicoid provides a mechanism for threshold‐dependent gene activation in the Drosophila embryo , 1998, The EMBO journal.
[50] E. Davidson,et al. The hardwiring of development: organization and function of genomic regulatory systems. , 1997, Development.
[51] R E Glass,et al. Visualization of single molecules of RNA polymerase sliding along DNA. , 1993, Science.
[52] Michael Levine,et al. Binding affinities and cooperative interactions with bHLH activators delimit threshold responses to the dorsal gradient morphogen , 1993, Cell.
[53] D. Crothers,et al. Sliding and intermolecular transfer of the lac repressor: kinetic perturbation of a reaction intermediate by a distant DNA sequence. , 1992, Proceedings of the National Academy of Sciences of the United States of America.
[54] Wolfgang Driever,et al. Determination of spatial domains of zygotic gene expression in the Drosophila embryo by the affinity of binding sites for the bicoid morphogen , 1989, Nature.
[55] P. V. von Hippel,et al. Selection of DNA binding sites by regulatory proteins. , 1988, Trends in biochemical sciences.
[56] M Ptashne,et al. Cooperative DNA binding of the yeast transcriptional activator GAL4. , 1988, Proceedings of the National Academy of Sciences of the United States of America.
[57] P. V. von Hippel,et al. Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters. , 1987, Journal of molecular biology.
[58] R. Tjian,et al. Activation of transcription by two factors that bind promoter and enhancer sequences of the human metallothionein gene and SV40 , 1987, Nature.
[59] M. Ptashne,et al. How λ repressor and λ Cro distinguish between OR1 and OR3 , 1986, Cell.
[60] P. Chambon,et al. Cell-type specific protein binding to the enhancer of simian virus 40 in nuclear extracts , 1986, Nature.
[61] J. Banerji,et al. Expression of a β-globin gene is enhanced by remote SV40 DNA sequences , 1981, Cell.
[62] J. Banerji,et al. Expression of a beta-globin gene is enhanced by remote SV40 DNA sequences. , 1981, Cell.