Publication archive

Papers

See also the arXiv and google scholar (this page was not updated since 2022)

    2022

  1. Radiomics and deep learning methods for the prediction of 2-year overall survival in LUNG1 dataset
    A. Braghetto, F. Marturano, M. Paiusco, M. Baiesi & A. Bettinelli
    Sci. Rep. 12, 14132 (2022)
    link
    DOI: 10.1038/s41598-022-18085-z
  2. Analysing the Main Standards for Climate-Induced Mechanical Risk in Heritage Wooden Structures: The Case of the Ringebu and Heddal Stave Churches (Norway)
    A. Califano, M. Baiesi, C. Bertolin
    Atmosphere 13 (5), 791 (2022)
    link
    DOI: 10.3390/atmos13050791
  3. Dynamic and Facilitated Binding of Topoisomerase Accelerates Topological Relaxation
    D. Michieletto, Y. A. G. Fosado, E. Melas, M. Baiesi, L. Tubiana, E. Orlandini
    Nucl. Acid Res. 50, 8, 4659-4668 (2022)
    link
    DOI: 10.1093/nar/gkac260
  4. Generalized equipartition for nonlinear multiplicative Langevin dynamics: application to laser-cooled atoms
    Gianmaria Falasco, Eli Barkai, Marco Baiesi
    Phys. Rev. E 105, 024143 (2022)
    DOI: 10.1103/PhysRevE.105.024143
    PDF
    link

    5. 2021

  5. The rise and fall of branching: a slowing down mechanism in relaxing wormlike micellar networks
    Marco Baiesi, Stefano Iubini, Enzo Orlandini
    J. Chem. Phys. 155, 214905 (2021)
    DOI: 10.1063/5.0072374
    PDF
    link
  6. Modelling the deceleration of COVID-19 spreading
    Giacomo Barzon, Karan Kabbur Hanumanthappa Manjunatha, Wolfgang Rugel, Enzo Orlandini, and Marco Baiesi
    J. Phys A.-Math. Theor. 54, 044002 (2021)
    DOI: 10.1088/1751-8121/abd59e
    PDF
    link

    7. 2020

  7. A thermodynamic uncertainty relation for a system with memory
    Ivan Di Terlizzi and Marco Baiesi
    J. Phys A.-Math. Theor. 53, 474002 (2020)
    DOI: 10.1088/1751-8121/abbc7d
    PDF
    link
  8. Explicit Solution of the Generalised Langevin Equation
    Ivan Di Terlizzi, Felix Ritort, and Marco Baiesi
    J. Stat. Phys. 181, 1609-1635 (2020)
    DOI: 10.1007/s10955-020-02639-4
    PDF
    link
  9. Aging of living polymer networks: a model with patchy particles
    Stefano Iubini, Marco Baiesi, Enzo Orlandini
    Soft Matter 16, 9543-9552 (2020)
    DOI: 10.1039/d0sm01391a
    PDF
    link
  10. On a possible nonequilibrium imprint in the cosmic background at low frequencies
    Marco Baiesi, Carlo Burigana, Livia Conti, Gianmaria Falasco, Christian Maes, Lamberto Rondoni, Tiziana Trombetti,
    Phys. Rev. Research 2, 013210 (2020)
    DOI: 10.1103/PhysRevResearch.2.013210
    PDF
    link
  11. Folding Rate Optimization Promotes Frustrated Interactions in Entangled Protein Structures
    Federico Norbiato, Flavio Seno, Antonio Trovato, Marco Baiesi
    Int. J. Mol. Sci. 2020, 21(1), 213
    DOI: 10.3390/ijms21010213
    PDF
    link
  12. Rate dependence of current and fluctuations in jump models with negative differential mobility
    Gianluca Teza, Stefano Iubini, Marco Baiesi, Attilio L. Stella, Carlo Vanderzande,
    Physica A 552, 123176 (2020)
    DOI: 10.1016/j.physa.2019.123176
    PDF
    link

    13. 2019

  13. Sequence and structural patterns detected in entangled proteins reveal the importance of co-translational folding
    Marco Baiesi, Enzo Orlandini, Flavio Seno, Antonio Trovato,
    Scientific Reports 9, 8426 (2019)
    PDF
  14. Kinetic Uncertainty Relation
    Ivan Di Terlizzi and Marco Baiesi
    J. Phys. A: Math. Theor. 52, 02LT03 (2019)
    PDF
    link

    15. 2018

  15. Topological Sieving of Rings According to their Rigidity
    Stefano Iubini, Davide Michieletto, Enzo Orlandini, Marco Baiesi
    ACS Macro Lett. 7,12, 1408-1412 (2018)
    unedited version (copyright American Chemical Society after peer review)
    PDF
    link
  16. Fundamental Problems in Statistical Physics XIV Special Issue
    Marco Baiesi, Alberto Rosso, Thomas Speck,
    Physica A 504, 1-4 (2018)
    10.1016/j.physa.2017.10.013
    link to the publisher webpage
  17. Life efficiency does not always increase with the dissipation rate
    Marco Baiesi and Christian Maes,
    J. Phys. Comm. 2, UNSP 045017 (2018)
    DOI: 10.1088/2399-6528/aab654
    PDF
    open access pdf from publisher

    18. 2017

  18. Exploring the correlation between the folding rates of proteins and the entanglement of their native states
    Marco Baiesi, Enzo Orlandini, Flavio Seno, Antonio Trovato,
    J. Phys. A. Math. Theor. 50, 504001 (2017)
    DOI: 10.1088/1751-8121/aa97e7
    PDF
    link
  19. Thermal response of a Fermi-Pasta-Ulam chain with Andersen thermostats
    Federico D'Ambrosio and Marco Baiesi,
    Eur. Phys. J. B 90, 235 (2017)
    DOI: 10.1140/epjb/e2017-80364-4
    PDF
    link
  20. A general fluctuation-response relation for noise variations and its application to driven hydrodynamic experiments
    Cem Yolcu, Antoine Berut, Gianmaria Falasco, Artyom Petrosyan, Sergio Ciliberto, Marco Baiesi,
    J. Stat. Phys. 167, 29-45 (2017).
    DOI: 10.1007/s10955-017-1732-z
    PDF
    link

    21. 2016

  21. Linking in domain-swapped protein dimers
    M. Baiesi, E. Orlandini, A. Trovato, F. Seno
    Sci. Rep. 6, 33872 (2016).
    DOI: 10.1038/srep33872
    PDF
    link
  22. Mesoscopic virial equation for nonequilibrium statistical mechanics
    G. Falasco, F. Baldovin, K. Kroy, M. Baiesi,
    New J. Phys. 18, 093043 (2016).
    DOI: 10.1088/1367-2630/18/9/093043
    PDF
    link
  23. Thermal response of nonequilibrium RC circuits
    M. Baiesi, S. Ciliberto, G.Falasco, and C. Yolcu
    Phys. Rev. E 94, 022144 (2016).
    DOI: 10.1103/PhysRevE.94.022144
    PDF
    link
  24. Self-similar aftershock rates
    J. Davidsen and M. Baiesi
    Phys. Rev. E 94, 022314 (2016).
    DOI: 10.1103/PhysRevE.94.022314
    PDF
    link
  25. How Local Flexibility Affects Knot Positioning in Ring Polymers
    E. Orlandini, M. Baiesi, F. Zonta,
    Macromolecules 49, 4656-4662 (2016).
    DOI: 10.1021/acs.macromol.6b00712
    PDF
    link to the final edited version (copyright American Chemical Society after peer review)
  26. Nonequilibrium temperature response for stochastic overdamped systems
    G. Falasco and M. Baiesi,
    New J. Phys. 18, 043039 (2016).
    DOI: 10.1088/1367-2630/18/4/043039
    PDF
    link
  27. Linear response of hydrodynamically-coupled particles under a nonequilibrium reservoir
    C. Yolcu and M. Baiesi,
    J. Stat. Mech. 033209 (2016).
    doi:10.1088/1742-5468/2016/03/033209
    PDF
    link
  28. Torque-Induced Rotational Dynamics in Polymers: Torsional Blobs and Thinning
    M. Laleman, M. Baiesi, B. P. Belotserkovskii, T. Sakaue, J.-C. Walter, E. Carlon,
    Macromolecules 49, 405-414 (2016).
    DOI: 10.1021/acs.macromol.5b01481
    link
  29. Temperature response in nonequilibrium stochastic systems
    G. Falasco and M. Baiesi,
    EPL 113, 20005 (2016).
    DOI: 10.1209/0295-5075/113/20005
    PDF
    link

    30. 2015

  30. Role of trapping and crowding as sources of negative differential mobility
    M. Baiesi, A. L. Stella, and C. Vanderzande,
    Phys. Rev. E 92, 042121 (2015).
    PDF
  31. Inflow rate, a time-symmetric observable obeying fluctuation relations
    M. Baiesi and G. Falasco,
    Phys. Rev. E 92, 042162 (2015).
    PDF
  32. Energy repartition for a harmonic chain with local reservoirs
    G. Falasco, M. Baiesi, L. Molinaro, L. Conti, and F. Baldovin,
    Phys. Rev. E 92, 022129 (2015).
    PDF
  33. Generalized Omori-Utsu law for aftershock sequences in southern California
    Joern Davidsen, Chad Gu, and Marco Baiesi,
    Geophys. J. Int. 201, 965-978 (2015).
    doi: 10.1093/gji/ggv061
    link
  34. Rings in Random Environments: Sensing Disorder Through Topology
    D. Michieletto, M. Baiesi, E. Orlandini, and M. S. Turner,
    Soft Matter 11, 1100 (2015).
    DOI: 10.1039/C4SM02324B
    PDF
    link to the final edited version

    35. 2014

  35. Knotted globular ring polymers: how topology affects statistics and thermodynamics
    M. Baiesi, E. Orlandini, and A. L. Stella,
    Macromolecules 47, 8466-8476 (2014).
    DOI: 10.1021/ma5020287
    PDF
    link to the final edited version (copyright American Chemical Society after peer review)
  36. Thermal response in driven diffusive systems
    M. Baiesi, U. Basu, and C. Maes,
    Eur. Phys. J. B 87, 277 (2014).
    PDF
  37. Rotational dynamics of entangled polymers
    J.-C. Walter, M. Leleman, M. Baiesi, and E. Carlon,
    Eur. Phys. J. Special Topics 223, 3201-3213 (2014).
    DOI: 10.1140/epjst/e2014-02327-3
    PDF
  38. Unwinding Dynamics of a Helically Wrapped Polymer
    J.-C. Walter, M. Baiesi, E. Carlon, and H. Schiessel
    Macromol. 47, 4840-4846 (2014).
    DOI: 10.1021/ma500635h
    PDF
    link
  39. Interacting elastic lattice polymers: A study of the free energy of globular rings
    Marco Baiesi and Enzo Orlandini,
    Phys. Rev. E 89, 062601 (2014).
    DOI: 10.1103/PhysRevE.89.062601
    PDF
    link
  40. Nonequilibrium fluctuation-dissipation theorem and heat production
    Eugenio Lippiello, Marco Baiesi, and Alessandro Sarracino,
    Phys. Rev. Lett. 112, 140602 (2014).
    DOI: 10.1103/PhysRevLett.112.140602
    PDF
    link

    41. 2013

  41. Models of DNA Denaturation Dynamics: Universal Properties
    M. Baiesi and E. Carlon
    Markov Processes Relat. Fields 19, 569-576 (2013).
    PDF
  42. Triggering cascades and statistical properties of aftershocks
    Chad Gu, Aicko Y. Schumann, Marco Baiesi, and Joern Davidsen
    J. Geophys. Res. 118, 4278-4295 (2013).
    DOI: 10.1002/jgrb.50306
    PDF
    link
  43. Unwinding relaxation dynamics of polymers
    Jean-Charles Walter, Marco Baiesi, Gerard Barkema, and Enrico Carlon
    Phys. Rev. Lett 110, 068301 (2013).
    DOI: http://dx.doi.org/10.1103/PhysRevLett.110.068301
    PDF
    link
  44. An update on nonequilibrium linear response
    M. Baiesi and C. Maes,
    New Journal of Physics 15, 013004 (2013).
    doi:10.1088/1367-2630/15/1/013004
    PDF
    link

    45. 2012

  45. Universal properties of knotted polymer rings
    Marco Baiesi and Enzo Orlandini,
    Phys. Rev. E 86, 031805 (2012).
    DOI: 10.1103/PhysRevE.86.031805
    PDF
    link
  46. First-order coil-globule transition driven by vibrational entropy
    Carlo Maffi, Marco Baiesi, Lapo Casetti, Francesco Piazza, and Paolo De Los Rios,
    Nature Communications 3, Article number: 1065 (2012)
    doi:10.1038/ncomms2055
    link

    47. 2011

  47. Fibril elongation mechanisms of HET-s prion-forming domain: Topological evidence for growth polarity
    M. Baiesi, F. Seno, and A. Trovato,
    Proteins 79, 3067-3081 (2011).
    doi: 10.1002/prot.23133
    PDF
    link
  48. Topological Signatures of Globular Polymers
    M. Baiesi, E. Orlandini, A. L. Stella, and F. Zonta,
    Phys. Rev. Lett. 106, 258301 (2011).
    PDF
    link
  49. The modified Sutherland-Einstein relation for diffusive non-equilibria
    M. Baiesi, C. Maes, and B. Wynants,
    Proc. Royal Soc. A 467, 2792-2809 (2011).
    DOI: 10.1098/rspa.2011.0046061801 link
    PDF

    50. 2010

  50. Unwinding dynamics of double-stranded polymers
    M. Baiesi, G. T. Barkema, E.Carlon, and D. Panja,
    J. Chem. Phys. 133, 154907 (2010).
    DOI: 10.1063/1.3505551 link
    PDF
  51. Elastic Lattice Polymers
    M. Baiesi, G. T. Barkema, and E.Carlon,
    Phys. Rev. E 81, 061801 (2010).
    DOI: 10.1103/PhysRevE.81.061801 link
    PDF
  52. The entropic cost to tie a knot
    M. Baiesi, E. Orlandini, and A. L. Stella,
    J. Stat. Mech. P06012 (2010).
    PDF
  53. A lattice polymer study of DNA renaturation dynamics
    A. Ferrantini, M. Baiesi, and E. Carlon,
    J. Stat. Mech. P03017 (2010).
    DOI: doi:10.1088/1742-5468/2010/03/P03017 link
    PDF
  54. Breakdown of thermodynamic equilibrium for DNA hybridization in microarrays
    J. Hooyberghs, M. Baiesi, A. Ferrantini, and E. Carlon,
    Phys. Rev. E 81, 012901 (2010).
    DOI: 10.1103/PhysRevE.81.012901 link
    PDF
  55. Nonequilibrium linear response for Markov dynamics, II: inertial dynamics
    M. Baiesi, E. Boksenbojm, C. Maes, and B. Wynants,
    J. Stat. Phys. 139, 492-505 (2010).
    DOI: 10.1007/s10955-010-9951-6 link
    PDF

    56. 2009

  56. Nonequilibrium linear response for Markov dynamics, I: jump processes and overdamped diffusions
    M. Baiesi, C. Maes, and B. Wynants,
    J. Stat. Phys. 137, 1094-1116 (2009).
    PDF
    link
  57. Interplay between writhe and knotting for swollen and compact polymers
    M. Baiesi, E. Orlandini, and S. G. Whittington,
    J. Chem. Phys. 131, 154902 (2009).
    PDF
    link
  58. Fluctuations and response of nonequilibrium states
    M. Baiesi, C. Maes, and B. Wynants,
    Phys. Rev. Lett. 103, 010602 (2009).
    DOI: 10.1103/PhysRevLett.103.010602 link
  59. A graph theoretical analysis of the energy landscape of a model protein
    M. Baiesi, L. Bongini, L. Casetti, and L. Tattini,
    Phys. Rev. E 80, 011905 (2009).
    DOI: 10.1103/PhysRevE.80.011905 link
  60. Correlated earthquakes in a self-organized model,
    M. Baiesi,
    Nonlin. Proc. Geophys. 16, 233 - 240 (2009).
  61. Multiple timescales in a model for DNA denaturation dynamics
    M. Baiesi and R. Livi,
    J. Phys. A: Math. Theor. 42, 082003 (8pp) (2009).
    DOI: 10.1088/1751-8113/42/8/082003 link
  62. Exact computation of current cumulants in small Markovian systems
    M. Baiesi, C. Maes, and C. Netocny,
    MODELING AND SIMULATION OF NEW MATERIALS: Proceedings of Modeling and Simulation of New Materials: Tenth Granada Lectures,
    AIP Conference Proceedings Volume 1091, 220-224 (2009).
    DOI: 10.1063/1.3082286 link
  63. Computation of current cumulants for small nonequilibrium systems
    M. Baiesi, C. Maes, and C. Netocny,
    J. Stat. Phys. 135, 57 - 75 (2009).
    DOI: 10.1007/s10955-009-9723-3 link

    64. 2008

  64. Correlated flares in models of a magnetized "canopy"
    M. Baiesi, C. Maes, and B. M. Shergelashvili,
    Physica A 387, 167 (2008).
    DOI: 10.1016/j.physa.2007.09.003 link

    65. 2007

  65. Ranking knots of random, globular polymer rings
    M. Baiesi, E. Orlandini, and A. L. Stella,
    Phys. Rev. Lett. 99, 058301 (2007).

    66. 2006

  66. Fluctuation symmetries for work and heat
    M. Baiesi, T. Jacobs, C. Maes, and N. Skantzos,
    Phys. Rev. E 74, 021111 (2006).
    DOI: 10.1103/PhysRevE.74.021111 link
  67. Realistic time correlations in sandpiles
    M. Baiesi and C. Maes,
    Europhys. Lett. 75, 413 (2006).
    DOI: 10.1209/epl/i2006-10137-2 link
  68. Self-Organized-Criticality model consistent with statistical properties of edge turbulence in a fusion plasma
    F. Sattin and M. Baiesi,
    Phys. Rev. Lett. 96, 105005 (2006).
    DOI: 10.1103/PhysRevLett.96.105005
  69. Intensity Thresholds and the Statistics of the Temporal Occurrence of Solar Flares
    M. Baiesi, M. Paczuski, and A. L. Stella,
    Phys. Rev. Lett. 96, 051103 (2006).
  70. Scaling of a collapsed polymer globule in two dimensions
    M. Baiesi, E. Orlandini, and A. L. Stella,
    Phys. Rev. Lett. 96, 040602 (2006).
  71. Scaling and precursor motifs in earthquake networks
    M. Baiesi,
    Physica A 359, 775 (2006).

    72. 2005

  72. Inter-occurrence Times in the Bak-Tang-Wiesenfeld Sandpile Model: A Comparison with the Statistics of Solar Flares
    M. Paczuski, S. Boettcher, and M. Baiesi,
    Phys. Rev. Lett. 95, 181102 (2005).
  73. Enstrophy dissipation in two-dimensional turbulence
    M. Baiesi and C. Maes,
    Phys. Rev. E 72, 056314 (2005).
  74. Complex networks of earthquakes and aftershocks
    M. Baiesi and M. Paczuski,
    Nonlin. Proc. Geophys. 12, 1 (2005).
    DOI: 10.5194/npg-12-1-2005 link

    75. 2004

  75. Unbinding of mutually avoiding random walks and two dimensional quantum gravity
    E. Carlon and M. Baiesi,
    Phys. Rev. E 70, 066118 (2004).
    DOI: 10.1103/PhysRevE.70.066118 link
  76. Scale-free networks of earthquakes and aftershocks
    M. Baiesi and M. Paczuski,
    Phys. Rev. E 69, 066106 (2004).

    77. 2003

  77. RNA denaturation: excluded volume, pseudoknots and transition scenarios
    M. Baiesi, E. Orlandini, and A. L. Stella,
    Phys. Rev. Lett. 91, 198102 (2003).
  78. Scale free networks from a Hamiltonian dynamics
    M. Baiesi and S. S. Manna,
    Phys. Rev. E 68, 047103 (2003).
    DOI: 10.1103/PhysRevE.68.047103 link
  79. Scaling in Denaturating DNA
    M. Baiesi, E. Carlon, E. Orlandini, and A. L. Stella,
    MODELING OF COMPLEX SYSTEMS: Seventh Granada Lectures
    AIP Conf. Proc., Volume 661, Issue 1, 254 (2003).
    DOI: 10.1063/1.1571321
  80. Inter-strand distance distribution of DNA near melting
    M. Baiesi, E. Carlon, Y. Kafri, D. Mukamel, E. Orlandini, and A. L. Stella,
    Phys. Rev. E 67, 021911 (2003).

    81. 2002

  81. A simple model of DNA denaturation and mutually avoiding walks statistics
    M. Baiesi, E. Carlon, E. Orlandini, and A. L. Stella,
    Eur. Phys. J. B 29, 129 (2002).
  82. Topological and geometrical entanglement in a model of circular DNA undergoing denaturation
    M. Baiesi, E. Orlandini, and A. L. Stella,
    Eur. Phys. J. B 28, 467 (2002).
  83. Scaling in DNA unzipping models: denaturated loops and end-segments as branches of a block copolymer network
    M. Baiesi, E. Carlon, and A. L. Stella,
    Phys. Rev. E 66, 021804 (2002).

    84. 2001

  84. Peculiar scaling of self-avoiding walk contacts
    M. Baiesi, E. Orlandini, and A. L. Stella,
    Phys. Rev. Lett. 87, 070602 (2001).
  85. Zipping and collapse of diblock copolymers
    M. Baiesi, E. Carlon, E. Orlandini, and A. L. Stella,
    Phys. Rev. E. 63, 041801 (2001).