Multiscale Modeling of Living Matter Group


Permanent Members


PhD students and Post-docs

image by Hua Wong

Recent Publications


Multiscale Analysis of Biological Systems.

Lesne A.

Acta Biotheor. 2013 Jan 18.


Pulling chromatin apart: Unstacking or Unwrapping?

Victor JM, Zlatanova J, Barbi M, Mozziconacci J.

BMC Biophys. 2012 Nov 27;5:21.

DNA topology in chromosomes: a quantitative survey and its physiological implications.

Barbi M, Mozziconacci J, Wong H, Victor JM.

J Math Biol. 2012 Nov 20.

Normalization of a chromosomal contact map.

Cournac A, Marie-Nelly H, Marbouty M, Koszul R, Mozziconacci J.

BMC Genomics. 2012 Aug 30;13:436

Nucleosome positioning and nucleosome stacking: two faces of the same coin.

Riposo J, Mozziconacci J.

Mol Biosyst. 2012 Apr;8(4):1172-8.

CDS: a fold-change based statistical test for concomitant identification of distinctness and similarity in gene expression analysis.

Tchitchek N, Dzib JF, Targat B, Noth S, Benecke A, Lesne A.

Genomics Proteomics Bioinformatics. 2012 Jun;10(3):127-35.

Building blocks of self-sustained activity in a simple deterministic model of excitable neural networks.

Garcia GC, Lesne A, Hütt MT, Hilgetag CC.

Front Comput Neurosci. 2012;6:50

The condensed chromatin fiber: an allosteric chemo-mechanical machine for signal transduction and genome processing.

Lesne A, Bécavin C, Victor JM.

Phys Biol. 2012 Feb;9(1):013001


Co-transcriptional architecture in a Y loop in Drosophila melanogaster.

Redhouse JL, Mozziconacci J, White RA.

Chromosoma. 2011 Aug;120(4):399-407

Effective interaction between charged nanoparticles and DNA.

Paillusson F, Dahirel V, Jardat M, Victor JM, Barbi M.

Phys Chem Chem Phys. 2011 Jul 21;13(27):12603-13

Linker histones incorporation maintains chromatin fiber plasticity.

Recouvreux P, Lavelle C, Barbi M, Conde E Silva N, Le Cam E, Victor JM, Viovy JL.

Biophys J. 2011 Jun 8;100(11):2726-35

Delay independence of mutual-information rate of two symbolic sequences.

Blanc JL, Pezard L, Lesne A.

Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Sep

Genetic susceptibility to a complex disease: the key role of functional redundancy.

Debret G, Jung C, Hugot JP, Pascoe L, Victor JM, Lesne A.

Hist Philos Life Sci. 2011;33(4):497-514.


Intra- and inter-chromosomal interactions correlate with CTCF binding genome wide.

Botta M, Haider S, Leung IX, Lio P, Mozziconacci J.

Mol Syst Biol. 2010 Nov 2;6:426

Chromatin fiber dynamics under tension and torsion.
Lavelle C, Victor JM, Zlatanova J.
Int J Mol Sci. 2010 Apr 12;11(4):1557-79.PMID: 20480035

Transcription within condensed chromatin: Steric hindrance facilitates elongation.
Becavin C, Barbi M, Victor JM, Lesne A.
Biophys J. 2010 Mar 3;98(5):824-33.PMID: 20197036


Molecular crowding affects diffusion and binding of nuclear proteins in heterochromatin and reveals the fractal organization of chromatin.
Bancaud A, Huet S, Daigle N, Mozziconacci J, Beaudouin J, Ellenberg J.
EMBO J. 2009 Dec 16;28(24):3785-98. Epub .PMID: 19927119

A molecular model of chromatin organisation and transcription: how a multi-RNA polymerase II machine transcribes and remodels the beta-globin locus during development.

Wong H, Winn PJ, Mozziconacci J.
Bioessays. 2009 Dec;31(12):1357-66.PMID: 19877003

How are nucleosomes disrupted during transcription elongation?
Zlatanova J, Victor JM.
HFSP J. 2009 Dec;3(6):373-8. Epub 2009 Nov 12.PMID: 20514129

Right-handed nucleosome: myth or reality?
Lavelle C, Recouvreux P, Wong H, Bancaud A, Viovy JL, Prunell A, Victor JM.
Cell. 2009 Dec 24;139(7):1216-7; author reply 1217-8. No abstract available. PMID: 20064364

Nonspecific DNA-protein interaction: why proteins can diffuse along DNA.

Dahirel V, Paillusson F, Jardat M, Barbi M, Victor JM.
Phys Rev Lett. 2009 Jun 5;102(22):228101. Epub 2009 Jun 2.PMID: 19658903

The nucleosome family: dynamic and growing.
Zlatanova J, Bishop TC, Victor JM, Jackson V, van Holde K.
Structure. 2009 Feb 13;17(2):160-71. Review.PMID: 19217387

Interplay between Topology and Dynamics in Excitation Patterns on Hierarchical Graphs.
Hutt MT, Lesne A.
Front Neuroinformatics. 2009;3:28. Epub 2009 Sep 15.PMID: 19826610

Systems biology: the multiscale organization of living systems
Lesne A.
Med Sci (Paris). 2009 Jun-Jul;25(6-7):585-7. Review. French. PMID: 19602355

Entropy estimation of very short symbolic sequences.
Lesne A, Blanc JL, Pezard L.
Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Apr;79(4 Pt 2):046208. Epub 2009 Apr 7.PMID: 19518313

AER1, a major gene conferring resistance to Aphanomyces euteiches in Medicago truncatula.
Pilet-Nayel ML, Prosperi JM, Hamon C, Lesne A, Lecointe R, Le Goff I, Herve M, Deniot G, Delalande M, Huguet T, Jacquet C, Baranger A.
Phytopathology. 2009 Feb;99(2):203-8.PMID: 19159312

Sequence-driven telomeric chromatin structure.
Revaud D, Mozziconacci J, Sabatier L, Desmaze C, Lavelle C.
Cell Cycle. 2009 Apr 1;8(7):1099-100. Epub 2009 Apr 4.PMID: 19270515


Tubulin dimers oligomerize before their incorporation into microtubules.
Mozziconacci J, Sandblad L, Wachsmuth M, Brunner D, Karsenti E.
PLoS One. 2008;3(11):e3821. Epub 2008 Nov 27.PMID: 19043587

Behavioral sequence analysis reveals a novel role for beta2* nicotinic receptors in exploration.

Maubourguet N, Lesne A, Changeux JP, Maskos U, Faure P.
PLoS Comput Biol. 2008 Nov;4(11):e1000229. Epub 2008 Nov 21.PMID: 19023420

Robustness: confronting lessons from physics and biology.
Lesne A.
Biol Rev Camb Philos Soc. 2008 Nov;83(4):509-32. Epub 2008 Sep 24. Review.PMID: 18823391

Feature context-dependency and complexity-reduction in probability landscapes for integrative genomics.
Lesne A, Benecke A.
Theor Biol Med Model. 2008 Sep 10;5:21.PMID: 18783599

Cellular automata approach of transmembrane ionic currents.
Pezard L, Lesne A.
J Integr Neurosci. 2008 Jun;7(2):271-86.PMID: 18763724


An all-atom model of the chromatin fiber containing linker histones reveals a versatile structure tuned by the nucleosomal repeat length.
Wong H, Victor JM, Mozziconacci J.
PLoS One. 2007 Sep 12;2(9):e877.PMID: 17849006

Nucleosome chiral transition under positive torsional stress in single chromatin fibers.
Bancaud A, Wagner G, Conde E Silva N, Lavelle C, Wong H, Mozziconacci J, Barbi M, Sivolob A, Le Cam E, Mouawad L, Viovy JL, Victor JM, Prunell A.
Mol Cell. 2007 Jul 6;27(1):135-47.PMID: 17612496

Dynamics of emotional expression in autobiographic speech of patients with anorexia nervosa.
Doba K, Pezard L, Lesne A, Vignau J, Christophe V, Nandrino JL.
Psychol Rep. 2007 Aug;101(1):237-49.PMID: 17958131 [


Structural plasticity of single chromatin fibers revealed by torsional manipulation.
Bancaud A, Conde e Silva N, Barbi M, Wagner G, Allemand JF, Mozziconacci J, Lavelle C, Croquette V, Victor JM, Prunell A, Viovy JL.
Nat Struct Mol Biol. 2006 May;13(5):444-50. Epub 2006 Apr 16.PMID: 16622406

A physical model for the condensation and decondensation of eukaryotic chromosomes.
Mozziconacci J, Lavelle C, Barbi M, Lesne A, Victor JM.
FEBS Lett. 2006 Jan 23;580(2):368-72. Epub 2005 Dec 27.PMID: 16387302

Autobiographical memory deficit in anorexia nervosa: emotion regulation and effect of duration of illness.
Nandrino JL, Doba K, Lesne A, Christophe V, Pezard L.
J Psychosom Res. 2006 Oct;61(4):537-43.PMID: 17011363

SAGA interacting factors confine sub-diffusion of transcribed genes to the nuclear envelope.
Cabal GG, Genovesio A, Rodriguez-Navarro S, Zimmer C, Gadal O, Lesne A, Buc H, Feuerbach-Fournier F, Olivo-Marin JC, Hurt EC, Nehrbass U.
Nature. 2006 Jun 8;441(7094):770-3.PMID: 16760982

Chromatin fiber functional organization: some plausible models.
Lesne A, Victor JM.
Eur Phys J E Soft Matter. 2006 Mar;19(3):279-90. Epub 2006 Feb 23.PMID: 16501875

The chromatin regulatory code: beyond a histone code.
Lesne A.
Eur Phys J E Soft Matter. 2006 Mar;19(3):375-7. Epub 2006 Feb 10.PMID: 16470338