DOI 10.1140/ep je/i2002-10113-2 Eur. Phys. J. E 10, 249--263 (2003) (2007)
The European Phy, S. Cocco, J. F. Marko, R. Monasson, A. Sarkar, J. Yan
The elasticresp onse of flexiblep olymers made of elements which can be either folded or unfolded, having di#erent lengths in these two states, is discussed. These situations are common forbiop...
Eur. Phys. J. E 10, 153--161 (2003) (2007)
Doi Epje The, Physical Journal E, S. Cocco, J. F. Marko, R. Monasson
Recent experiments on unzipping of RNA helix-loop structures by force have shown that #40-base molecules can undergo kinetic transitions between two well-defined "open" and...
Slow nucleic acid unzipping kinetics from sequence-defined barriers (2002)
Cocco, S., Marko, J. F., Monasson, R.
Recent experiments on unzipping of RNA helix-loop structures by force have shown that about 40-base molecules can undergo kinetic transitions between two well-defined `open' and `closed' states, on a...
Unzipping Dynamics of Long DNAs (2002)
Cocco, S., Monasson, R., Marko, J. F.
The two strands of the DNA double helix can be `unzipped' by application of 15 pN force. We analyze the dynamics of unzipping and rezipping, for the case where the molecule ends are separated and...
Theoretical models for single-molecule DNA and RNA experiments: from elasticity to unzipping (2002)
Cocco, S., Marko, J. F., Monasson, R.
We review statistical-mechanical theories of single-molecule micromanipulation experiments on nucleic acids. First, models for describing polymer elasticity are introduced. We then review how these...
Interphase chromosomes undergo constrained diffusional motion in living cells (1997)
W. F. Marshall, A. Straight, J. F. Marko, J. Swedlow, A. Dernburg, A. Belmont, ...
living cells
Pressure studies on phase transitions in 4-alkoxyphenyl-4’-nitrobenzoyloxybenzoates (1989)
Raja, V.N., Ratna, B.R., Shashidhar, R., Heppke, G., Bahr, Ch., Marko, J.F., ...
We have studied the effect of high pressure on the phase transitions in the seventh to tenth homologs of 4-alkoxyphenly-4’-nitrobenzoyloxybenzoates (DB.kO.NO2). While pressure does not induce any...
Leger, J. F., Robert, J., Bourdieu, L., Chatenay, D., Marko, J. F.
Most genetic regulatory mechanisms involve protein–DNA interactions. In these processes, the classical Watson–Crick DNA structure sometimes is distorted severely, which in turn enables the...
Extension of torsionally stressed DNA by external force.
Metropolis Monte Carlo simulation was used to study the elasticity of torsionally stressed double-helical DNA. Equilibrium distributions of DNA conformations for different values of linking deficit,...
Driving proteins off DNA using applied tension.
Proteins that bind DNA so as to reduce its end-to-end length can be dissociated by application of force. The thermodynamics of this process are discussed, with special attention to the case of...
Single Chromatin Fiber Stretching Reveals Physically Distinct Populations of Disassembly Events
Pope, L. H., Bennink, M. L., Nikova, D., Greve, J., Marko, J. F.
Eukaryotic DNA is packaged into the cell nucleus as a nucleoprotein complex, chromatin. Despite this condensed state, access to the DNA sequence must occur during gene expression and other essential...
Leger, J. F., Robert, J., Bourdieu, L., Chatenay, D., Marko, J. F.
Most genetic regulatory mechanisms involve protein–DNA interactions. In these processes, the classical Watson–Crick DNA structure sometimes is distorted severely, which in turn enables the...
Extension of torsionally stressed DNA by external force.
Metropolis Monte Carlo simulation was used to study the elasticity of torsionally stressed double-helical DNA. Equilibrium distributions of DNA conformations for different values of linking deficit,...
Driving proteins off DNA using applied tension.
Proteins that bind DNA so as to reduce its end-to-end length can be dissociated by application of force. The thermodynamics of this process are discussed, with special attention to the case of...
Single Chromatin Fiber Stretching Reveals Physically Distinct Populations of Disassembly Events
Pope, L. H., Bennink, M. L., Nikova, D., Greve, J., Marko, J. F.
Eukaryotic DNA is packaged into the cell nucleus as a nucleoprotein complex, chromatin. Despite this condensed state, access to the DNA sequence must occur during gene expression and other essential...