publications

publications by categories in reversed chronological order. generated by jekyll-scholar.

2024

  1. Exploring the benefits of DNA-target search with antenna
    Lucas Hedström ,  and  Ludvig Lizana
    arXiv.2311.11727, 2024
  2. The scales, mechanisms, and dynamics of the genome architecture
    Ludvig Lizana ,  and  Yuri B. Schwartz
    Science Advances, 2024
  3. A general mechanism for enhancer-insulator pairing reveals heterogeneous dynamics in long-distant 3D gene regulation
    Lucas Hedström ,  Ralf Metzler ,  and  Ludvig Lizana
    arXiv:2402.09209, 2024
  4. Identifying stable communities in Hi-C using multifractal network modularity
    Lucas Hedström ,  Antón Carcedo Martínez ,  and  Ludvig Lizana
    arXiv:2405.05425, 2024

2023

  1. Polycomb proteins translate histone methylation to chromatin folding
    Ludvig Lizana ,  Negar Nahali ,  and  Yuri B Schwartz
    Journal of Biological Chemistry, 2023
  2. Mapping the semi-nested community structure of 3D chromosome contact networks
    Dolores Bernenko ,  Sang Hoon Lee ,  Per Stenberg , and 1 more author
    PLOS Computational Biology, 2023
  3. Modelling chromosome-wide target search
    Lucas Hedström ,  and  Ludvig Lizana
    New Journal of Physics, 2023
  4. Mapping robust multiscale communities in chromosome contact networks
    Anton Holmgren ,  Dolores Bernenko ,  and  Ludvig Lizana
    Scientific Reports, 2023
  5. Exploring 3D community inconsistency in human chromosome contact networks
    Dolores Bernenko ,  Sang Hoon Lee ,  and  Ludvig Lizana
    Journal of Physics: Complexity, 2023
  6. Forecasting histone methylation by Polycomb complexes with minute-scale precision
    Moa J. Lundkvist ,  Ludvig Lizana ,  and  Yuri B. Schwartz
    Science Advances, 2023

2022

  1. Fractal and knot-free chromosomes facilitate nucleoplasmic transport
    Yeonghoon Kim ,  Ludvig Lizana ,  and  Jae-Hyung Jeon
    Physical Review Letters, 2022

2021

  1. Modeling protein target search in human chromosomes
    Markus Nyberg ,  Tobias Ambjörnsson ,  Per Stenberg , and 1 more author
    Physical Review Research, 2021

2019

  1. Mapping the spectrum of 3D communities in human chromosome conformation capture data
    Sang Hoon Lee ,  Yeonghoon Kim ,  Sungmin Lee , and 4 more authors
    Scientific reports, 2019
  2. Genomic 3D compartments emerge from unfolding mitotic chromosomes
    Rajendra Kumar ,  Ludvig Lizana ,  and  Per Stenberg
    Chromosoma, 2019
  3. Highly interacting regions of the human genome are enriched with enhancers and bound by DNA repair proteins
    Haitham Sobhy ,  Rajendra Kumar ,  Jacob Lewerentz , and 2 more authors
    Scientific reports, 2019
  4. First-passage statistics under stochastic resetting in bounded domains
    Xavier Durang ,  Sungmin Lee ,  Ludvig Lizana , and 1 more author
    Journal of Physics A: Mathematical and Theoretical, 2019

2018

  1. Zero-crossing statistics for non-Markovian time series
    Markus Nyberg ,  Ludvig Lizana ,  and  Tobias Ambjörnsson
    Physical Review E, 2018
  2. Persistence of non-Markovian Gaussian stationary processes in discrete time
    Markus Nyberg ,  and  Ludvig Lizana
    Physical Review E, 2018

2017

  1. Smoluchowski rate for diffusion-controlled reactions of molecules with antenna
    Oleg A Vasilyev ,  Ludvig Lizana ,  and  Gleb Oshanin
    Journal of Physics A: Mathematical and Theoretical, 2017
  2. Genome contact map explorer: a platform for the comparison, interactive visualization and analysis of genome contact maps
    Rajendra Kumar ,  Haitham Sobhy ,  Per Stenberg , and 1 more author
    Nucleic acids research, 2017

2016

  1. A simple method to calculate first-passage time densities with arbitrary initial conditions
    Markus Nyberg ,  Tobias Ambjörnsson ,  and  Ludvig Lizana
    New Journal of Physics, 2016
  2. Tracer particles in two-dimensional elastic networks diffuse logarithmically slow
    Ludvig Lizana ,  Tobias Ambjörnsson ,  and  Michael A Lomholt
    Journal of Physics A: Mathematical and Theoretical, 2016

2015

  1. Many-body effects on tracer particle diffusion with applications for single-protein dynamics on DNA
    Sebastian Ahlberg ,  Tobias Ambjörnsson ,  and  Ludvig Lizana
    New Journal of Physics, 2015

2014

  1. Single-file diffusion with non-thermal initial conditions
    Ludvig Lizana ,  Michael A Lomholt ,  and  Tobias Ambjörnsson
    Physica A: Statistical Mechanics and its Applications, 2014
  2. Exact expressions for the mobility and electrophoretic mobility of a weakly charged sphere in a simple electrolyte
    Ludvig Lizana ,  and  Alexander Y Grosberg
    Europhysics Letters, 2014
  3. Dynamics of interacting information waves in networks
    Atieh Mirshahvalad ,  Alcides Viamontes Esquivel ,  Ludvig Lizana , and 1 more author
    Physical Review E, 2014
  4. Non-Markovian effects in the first-passage dynamics of obstructed tracer particle diffusion in one-dimensional systems
    Robin Forsling ,  Lloyd P Sanders ,  Tobias Ambjörnsson , and 1 more author
    The Journal of Chemical Physics, 2014
  5. Severe slowing-down and universality of the dynamics in disordered interacting many-body systems: ageing and ultraslow diffusion
    Lloyd P Sanders ,  Michael A Lomholt ,  Ludvig Lizana , and 3 more authors
    New Journal of Physics, 2014
  6. Ageing single file motion
    Ralf Metzler ,  Lloyd Sanders ,  Michael Andersen Lomholt , and 3 more authors
    The European Physical Journal Special Topics, 2014
  7. First-passage dynamics of obstructed tracer particle diffusion in one-dimensional systems
    Robin Forsling ,  Lloyd Sanders ,  Tobias Ambjörnsson , and 1 more author
    arXiv preprint arXiv:1401.2933, 2014

2013

  1. Quality control system response to stochastic growth of amyloid fibrils
    Simone Pigolotti ,  Ludvig Lizana ,  Daniel Otzen , and 1 more author
    FEBS letters, 2013
  2. Effects of city-size heterogeneity on epidemic spreading in a metapopulation: a reaction-diffusion approach
    Halvor Lund ,  Ludvig Lizana ,  and  Ingve Simonsen
    Journal of statistical physics, 2013
  3. Microscopic origin of the logarithmic time evolution of aging processes in complex systems
    Michael A Lomholt ,  Ludvig Lizana ,  Ralf Metzler , and 1 more author
    Physical review letters, 2013

2011

  1. Dissimilar bouncy walkers
    Michael A Lomholt ,  Ludvig Lizana ,  and  Tobias Ambjörnsson
    The Journal of chemical physics, 2011
  2. Modeling the spatial dynamics of culture spreading in the presence of cultural strongholds
    Ludvig Lizana ,  Namiko Mitarai ,  Kim Sneppen , and 1 more author
    Physical Review E, 2011
  3. Structural correlations in bacterial metabolic networks
    Sebastian Bernhardsson ,  Philip Gerlee ,  and  Ludvig Lizana
    BMC evolutionary biology, 2011

2010

  1. Structural correlations in bacterial metabolic networks
    P Gerlee ,  S Bernhardsson ,  L Lizana , and 1 more author
    In FEBS JOURNAL , 2010