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Items: 21

1.

Role of nuclear RNA in regulating chromatin structure and transcription.

Michieletto D, Gilbert N.

Curr Opin Cell Biol. 2019 Apr 19;58:120-125. doi: 10.1016/j.ceb.2019.03.007. [Epub ahead of print] Review.

2.

Synergy of topoisomerase and structural-maintenance-of-chromosomes proteins creates a universal pathway to simplify genome topology.

Orlandini E, Marenduzzo D, Michieletto D.

Proc Natl Acad Sci U S A. 2019 Apr 23;116(17):8149-8154. doi: 10.1073/pnas.1815394116. Epub 2019 Apr 8.

3.

Physical principles of retroviral integration in the human genome.

Michieletto D, Lusic M, Marenduzzo D, Orlandini E.

Nat Commun. 2019 Feb 4;10(1):575. doi: 10.1038/s41467-019-08333-8.

4.

Synergistic Interactions Between DNA and Actin Trigger Emergent Viscoelastic Behavior.

Fitzpatrick R, Michieletto D, Peddireddy KR, Hauer C, Kyrillos C, Gurmessa BJ, Robertson-Anderson RM.

Phys Rev Lett. 2018 Dec 21;121(25):257801. doi: 10.1103/PhysRevLett.121.257801.

PMID:
30608839
5.

Nonequilibrium Chromosome Looping via Molecular Slip Links.

Brackley CA, Johnson J, Michieletto D, Morozov AN, Nicodemi M, Cook PR, Marenduzzo D.

Phys Rev Lett. 2017 Sep 29;119(13):138101. doi: 10.1103/PhysRevLett.119.138101. Epub 2017 Sep 26.

PMID:
29341686
6.

Extrusion without a motor: a new take on the loop extrusion model of genome organization.

Brackley CA, Johnson J, Michieletto D, Morozov AN, Nicodemi M, Cook PR, Marenduzzo D.

Nucleus. 2018 Jan 1;9(1):95-103. doi: 10.1080/19491034.2017.1421825.

7.

Glassiness and Heterogeneous Dynamics in Dense Solutions of Ring Polymers.

Michieletto D, Nahali N, Rosa A.

Phys Rev Lett. 2017 Nov 10;119(19):197801. doi: 10.1103/PhysRevLett.119.197801. Epub 2017 Nov 7.

PMID:
29219489
8.

Shaping epigenetic memory via genomic bookmarking.

Michieletto D, Chiang M, Colì D, Papantonis A, Orlandini E, Cook PR, Marenduzzo D.

Nucleic Acids Res. 2018 Jan 9;46(1):83-93. doi: 10.1093/nar/gkx1200.

9.

Epigenetic Transitions and Knotted Solitons in Stretched Chromatin.

Michieletto D, Orlandini E, Marenduzzo D.

Sci Rep. 2017 Nov 7;7(1):14642. doi: 10.1038/s41598-017-13916-w.

10.

Dynamical Scaling and Phase Coexistence in Topologically Constrained DNA Melting.

Fosado YAG, Michieletto D, Marenduzzo D.

Phys Rev Lett. 2017 Sep 15;119(11):118002. doi: 10.1103/PhysRevLett.119.118002. Epub 2017 Sep 12.

PMID:
28949232
11.

Ring Polymers: Threadings, Knot Electrophoresis and Topological Glasses.

Michieletto D, Marenduzzo D, Orlandini E, Turner MS.

Polymers (Basel). 2017 Aug 8;9(8). pii: E349. doi: 10.3390/polym9080349. Review.

12.

Ephemeral Protein Binding to DNA Shapes Stable Nuclear Bodies and Chromatin Domains.

Brackley CA, Liebchen B, Michieletto D, Mouvet F, Cook PR, Marenduzzo D.

Biophys J. 2017 Mar 28;112(6):1085-1093. doi: 10.1016/j.bpj.2017.01.025.

13.

A single nucleotide resolution model for large-scale simulations of double stranded DNA.

Fosado YA, Michieletto D, Allan J, Brackley CA, Henrich O, Marenduzzo D.

Soft Matter. 2016 Nov 28;12(47):9458-9470.

14.

Simulating topological domains in human chromosomes with a fitting-free model.

Brackley CA, Michieletto D, Mouvet F, Johnson J, Kelly S, Cook PR, Marenduzzo D.

Nucleus. 2016 Sep 2;7(5):453-461.

15.

On the tree-like structure of rings in dense solutions.

Michieletto D.

Soft Matter. 2016 Nov 28;12(47):9485-9500.

PMID:
27781227
16.

A topologically driven glass in ring polymers.

Michieletto D, Turner MS.

Proc Natl Acad Sci U S A. 2016 May 10;113(19):5195-200. doi: 10.1073/pnas.1520665113. Epub 2016 Apr 26.

17.

Topological patterns in two-dimensional gel electrophoresis of DNA knots.

Michieletto D, Marenduzzo D, Orlandini E.

Proc Natl Acad Sci U S A. 2015 Oct 6;112(40):E5471-7. doi: 10.1073/pnas.1506907112. Epub 2015 Sep 8.

18.

Is the kinetoplast DNA a percolating network of linked rings at its critical point?

Michieletto D, Marenduzzo D, Orlandini E.

Phys Biol. 2015 May 13;12(3):036001. doi: 10.1088/1478-3975/12/3/036001.

PMID:
25970016
19.

Rings in random environments: sensing disorder through topology.

Michieletto D, Baiesi M, Orlandini E, Turner MS.

Soft Matter. 2015 Feb 14;11(6):1100-6. doi: 10.1039/c4sm02324b.

PMID:
25523275
20.

Dynamics of self-threading ring polymers in a gel.

Michieletto D, Marenduzzo D, Orlandini E, Alexander GP, Turner MS.

Soft Matter. 2014 Aug 28;10(32):5936-44. doi: 10.1039/c4sm00619d.

PMID:
24985134
21.

Gap junctions, dendrites and resonances: a recipe for tuning network dynamics.

Timofeeva Y, Coombes S, Michieletto D.

J Math Neurosci. 2013 Aug 14;3(1):15. doi: 10.1186/2190-8567-3-15.

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