Lista de obras - Ian B Dodd - Dominio Público Uruguay

A mathematical model for transcriptional interference by RNA polymerase traffic in Escherichia coli

artículo científico publicado en 2004

A quantitative binding model for the Apl protein, the dual purpose recombination-directionality factor and lysis-lysogeny regulator of bacteriophage 186

scientific article published on 13 August 2020

A simple histone code opens many paths to epigenetics

artículo científico publicado en 2012

Action at a distance in CI repressor regulation of the bacteriophage 186 genetic switch

artículo científico publicado en 2002

Bacteriophage P4 Vis protein is needed for prophage excision

artículo científico publicado en 2004

Bacteriophage lambda repressor mediates the formation of a complex enhancer-like structure

artículo científico publicado en 2013

Barriers and silencers: a theoretical toolkit for control and containment of nucleosome-based epigenetic states

scientific article published on 20 October 2011

Collaboration between CpG sites is needed for stable somatic inheritance of DNA methylation states

artículo científico publicado en 2013

Control of gene expression in the temperate coliphage 186. VIII. Control of lysis and lysogeny by a transcriptional switch involving face-to-face promoters.

artículo científico publicado en 1990

Cooperative stabilization of the SIR complex provides robust epigenetic memory in a model of SIR silencing in Saccharomyces cerevisiae.

artículo científico publicado en 2015

Cooperativity in long-range gene regulation by the lambda CI repressor.

artículo científico publicado en 2004

Cro's role in the CI Cro bistable switch is critical for {lambda}'s transition from lysogeny to lytic development

artículo científico publicado en 2007

DNA binding by the coliphage 186 repressor protein CI.

artículo científico publicado en 1996

DNA methylation in human epigenomes depends on local topology of CpG sites

artículo científico publicado en 2016

Defining the SOS operon of coliphage 186.

artículo científico publicado en 1996

Directing traffic on DNA-How transcription factors relieve or induce transcriptional interference.

artículo científico publicado en 2017

Economy of operon formation: cotranscription minimizes shortfall in protein complexes

artículo científico publicado en 2010

Efficient chromosomal-scale DNA looping in Escherichia coli using multiple DNA-looping elements

artículo científico publicado en 2017

Enhancer-like long-range transcriptional activation by λ CI-mediated DNA looping

artículo científico publicado en 2013

Functional alignment of regulatory networks: a study of temperate phages

artículo científico publicado en 2005

Identification of residues in the N-terminal PAS domains important for dimerization of Arnt and AhR.

artículo científico publicado en 2011

Instability of CII is needed for efficient switching between lytic and lysogenic development in bacteriophage 186

artículo científico publicado en 2020

Minimal gene regulatory circuits for a lysis-lysogeny choice in the presence of noise

artículo científico publicado en 2010

Minimal gene regulatory circuits that can count like bacteriophage lambda

artículo científico publicado en 2009

Modelling transcriptional interference and DNA looping in gene regulation.

artículo científico publicado en 2007

Network models of phage-bacteria coevolution

artículo científico publicado en 2006

Nucleosome dynamics and maintenance of epigenetic states of CpG islands

artículo científico publicado en 2016

Octamerization of lambda CI repressor is needed for effective repression of P(RM) and efficient switching from lysogeny

artículo científico publicado en 2001

One-step cloning and chromosomal integration of DNA.

artículo científico publicado en 2013

Positive and Negative Control of Enhancer-Promoter Interactions by Other DNA Loops Generates Specificity and Tunability

scientific article published on 01 February 2019

Potent transcriptional interference by pausing of RNA polymerases over a downstream promoter

artículo científico publicado en 2009

Programmable DNA looping using engineered bivalent dCas9 complexes

artículo científico publicado en 2017

Promoter activation by CII, a potent transcriptional activator from bacteriophage 186.

artículo científico publicado en 2014

Quantitation of interactions between two DNA loops demonstrates loop domain insulation in E. coli cells

artículo científico publicado en 2014

Quantitation of the DNA tethering effect in long-range DNA looping in vivo and in vitro using the Lac and λ repressors.

artículo científico publicado en 2013

RNA polymerase pausing at a protein roadblock can enhance transcriptional interference by promoter occlusion

scientific article published on 29 March 2019

Revisited gene regulation in bacteriophage lambda.

artículo científico publicado en 2005

Road rules for traffic on DNA-systematic analysis of transcriptional roadblocking in vivo.

artículo científico publicado en 2014

Single molecule analysis of DNA wrapping and looping by a circular 14mer wheel of the bacteriophage 186 CI repressor

artículo científico publicado en 2013

Systematic method for the detection of potential lambda Cro-like DNA-binding regions in proteins.

artículo científico publicado en 1987

The Cro-like Apl repressor of coliphage 186 is required for prophage excision and binds near the phage attachment site

artículo científico publicado en 1993

The generation of promoter-mediated transcriptional noise in bacteria

artículo científico publicado en 2008

The helix-turn-helix motif of the coliphage 186 immunity repressor binds to two distinct recognition sequences

artículo científico publicado en 2001

The loopometer: a quantitative in vivo assay for DNA-looping proteins

artículo científico publicado en 2021

The prediction of helix-turn-helix DNA-binding regions in proteins. A reply to Yudkin

scientific article published on 01 September 1988

The role of repressor kinetics in relief of transcriptional interference between convergent promoters

artículo científico publicado en 2016

The structural basis of cooperative regulation at an alternate genetic switch

scientific article published on 01 March 2006

Theoretical analysis of epigenetic cell memory by nucleosome modification.

artículo científico publicado en 2007

Theory for the stability and regulation of epigenetic landscapes.

artículo científico publicado en 2010

Ultrasensitive gene regulation by positive feedback loops in nucleosome modification

artículo científico publicado en 2008

Why Do Phage Play Dice?

artículo científico publicado en 2012

Why do phage play dice?

scientific article published on 09 September 2009

Lista de obras de Ian B Dodd

A mathematical model for transcriptional interference by RNA polymerase traffic in Escherichia coli

A quantitative binding model for the Apl protein, the dual purpose recombination-directionality factor and lysis-lysogeny regulator of bacteriophage 186

A simple histone code opens many paths to epigenetics

Action at a distance in CI repressor regulation of the bacteriophage 186 genetic switch

Bacteriophage P4 Vis protein is needed for prophage excision

Bacteriophage lambda repressor mediates the formation of a complex enhancer-like structure

Barriers and silencers: a theoretical toolkit for control and containment of nucleosome-based epigenetic states

Collaboration between CpG sites is needed for stable somatic inheritance of DNA methylation states

Control of gene expression in the temperate coliphage 186. VIII. Control of lysis and lysogeny by a transcriptional switch involving face-to-face promoters.

Cooperative stabilization of the SIR complex provides robust epigenetic memory in a model of SIR silencing in Saccharomyces cerevisiae.

Cooperativity in long-range gene regulation by the lambda CI repressor.

Cro's role in the CI Cro bistable switch is critical for {lambda}'s transition from lysogeny to lytic development

DNA binding by the coliphage 186 repressor protein CI.

DNA methylation in human epigenomes depends on local topology of CpG sites

Defining the SOS operon of coliphage 186.

Directing traffic on DNA-How transcription factors relieve or induce transcriptional interference.

Economy of operon formation: cotranscription minimizes shortfall in protein complexes

Efficient chromosomal-scale DNA looping in Escherichia coli using multiple DNA-looping elements

Enhancer-like long-range transcriptional activation by λ CI-mediated DNA looping

Functional alignment of regulatory networks: a study of temperate phages

Identification of residues in the N-terminal PAS domains important for dimerization of Arnt and AhR.

Instability of CII is needed for efficient switching between lytic and lysogenic development in bacteriophage 186

Minimal gene regulatory circuits for a lysis-lysogeny choice in the presence of noise

Minimal gene regulatory circuits that can count like bacteriophage lambda

Modelling transcriptional interference and DNA looping in gene regulation.

Network models of phage-bacteria coevolution

Nucleosome dynamics and maintenance of epigenetic states of CpG islands

Octamerization of lambda CI repressor is needed for effective repression of P(RM) and efficient switching from lysogeny

One-step cloning and chromosomal integration of DNA.

Positive and Negative Control of Enhancer-Promoter Interactions by Other DNA Loops Generates Specificity and Tunability

Potent transcriptional interference by pausing of RNA polymerases over a downstream promoter

Programmable DNA looping using engineered bivalent dCas9 complexes

Promoter activation by CII, a potent transcriptional activator from bacteriophage 186.

Quantitation of interactions between two DNA loops demonstrates loop domain insulation in E. coli cells

Quantitation of the DNA tethering effect in long-range DNA looping in vivo and in vitro using the Lac and λ repressors.

RNA polymerase pausing at a protein roadblock can enhance transcriptional interference by promoter occlusion

Revisited gene regulation in bacteriophage lambda.

Road rules for traffic on DNA-systematic analysis of transcriptional roadblocking in vivo.

Single molecule analysis of DNA wrapping and looping by a circular 14mer wheel of the bacteriophage 186 CI repressor

Systematic method for the detection of potential lambda Cro-like DNA-binding regions in proteins.

The Cro-like Apl repressor of coliphage 186 is required for prophage excision and binds near the phage attachment site

The generation of promoter-mediated transcriptional noise in bacteria

The helix-turn-helix motif of the coliphage 186 immunity repressor binds to two distinct recognition sequences

The loopometer: a quantitative in vivo assay for DNA-looping proteins

The prediction of helix-turn-helix DNA-binding regions in proteins. A reply to Yudkin

The role of repressor kinetics in relief of transcriptional interference between convergent promoters

The structural basis of cooperative regulation at an alternate genetic switch

Theoretical analysis of epigenetic cell memory by nucleosome modification.

Theory for the stability and regulation of epigenetic landscapes.

Ultrasensitive gene regulation by positive feedback loops in nucleosome modification

Why Do Phage Play Dice?

Why do phage play dice?