Modelling the dynamics of tuberculosis lesions in a virtual lung: Role of the bronchial tree in endogenous reinfection

Martí Català, Jordi Bechini, Montserrat Tenesa, Ricardo Pérez, Mariano Moya, Cristina Vilaplana, Joaquim Valls, Sergio Alonso, Daniel López, Pere-Joan Cardona, Clara Prats

PLoS Comput Biol 16(5): e1007772. 2020.

Sven Flemming, Francesc Font, Sergio Alonso, Carsten Beta

Proceedings of the National Academy of Sciences 117 (12), 6330-6338, 2020.




C. Hawks, J. Elorza, A. Witt, D. Laroze,  I. Rodriguez Cantalapiedra, A. Peñaranda, B. Echebarria, and J. Bragard.
International Journal of Bifurcation and Chaos 29, 1930021, 2019
Gustavo Montes Novaes, Joventino Oliveira Campos, Enrique Alvarez-Lacalle, Sergio Alonso, Bernardo Martins Rocha, and Rodrigo Weber dos Santos

Unstable state decay in non-Markovian heat baths and weak signals detection

J.I.Jiménez-Aquino, N.Sánchez-Salas, L.Ramírez-Piscina and M.Romero-Bastida
Physica A: Statistical Mechanics and its Applications, 529, 121493, 2019.

Electrophysiological Effects of Small Conductance Ca2+ Activated K+ Channels in Atrial Myocytes

Angelina Peñaranda, Inma R. Cantalapiedra, Enrique Alvarez-Lacalle, and Blas Echebarria
Biological Systems: Nonlinear Dynamics Approach, SEMA SIMAI Springer Series book series 20, 19-37, 2019.

Stochastic coupled map model of subcellular calcium cycling in cardiac cells

Luis Romero, Enric Alvarez-Lacalle, and Yohannes Shiferaw
Chaos 29, 023125, 2019.



Bubble Dynamics in Turbulent Duct Flows: Lattice-Boltzmann Simulations and Drop Tower Experiments

Pau Bitlloch, Xavier Ruiz, Laureano Ramírez-Piscina, Jaume Casademunt

Microgravity Science and Technology 30, 525–534, 2018.

Computational model of calcium signaling in cardiac atrial cells at the submicron scale

Miquel Marchena, and Blas Echebarria

Frontiers in Physiology 9, 1760, 2018.

Can systems immunology lead tuberculosis eradication?

Pere-Joan Cardona, Martí Català, Marta Arch, Lilibeth Arias, Sergio Alonso, Paula Cardona, Daniel López, Cristina Vilaplana, and Clara Prats

Current Opinion in Systems Biology, 12, 2018, 53-60, 2018

Ectopic beats arise from micro-reentries near infarct regions in simulations of a patient-specific heart model

Rafael Sachetto, Sergio Alonso, Fernando Otaviano Campos, Bernardo Martins Rocha, João Filipe Fernandes, Titus Kuehne and and Rodrigo Weber dos Santos

Scientific Reports 8,16392, 2018.

Modeling random crawling, membrane deformation and intracellular polarity of motile amoeboid cells

Sergio Alonso, Maike Stange and Carsten Beta

PLoS ONE 13, e0201977, 2018.

Development of a Computational Model of Abscess Formation

Alexandre B. Pigozzo, Dominique Missiakas, Sergio Alonso, Rodrigo Weber dos Santos, and Marcelo Lobosco

Frontiers in Microbiology 9, 1355, 2018.

Killing Many Birds With Two Stones: Hypoxia and Fibrosis Can Generate Ectopic Beats in a Human Ventricular Model

Rafael Sachetto, Sergio Alonso, and Rodrigo Weber dos Santos

Frontiers in Physiology 9, 764, 2018.

Using archaeomagnetism to improve the dating of three sites in Catalonia (NE Spain)

Lluís Casas, Carlota Auguet, Gerard Cantoni, Jordi López Vilar, Núria Guasch, Marta Prevosti

Journal of Cultural Heritage 31, 152-161, 2018.

Periodic spiking by a pair of ionic channels

L.Ramírez-Piscina and J.M.Sancho

Physica A 505, 345-354, 2018.

Discretization-dependent model for weakly connected excitable media

Pedro André Arroyo, Sergio Alonso, and Rodrigo Weber dos Santos

Phys. Rev. E 97, 032214, 2018

Generation and control of monodisperse bubble suspensions in microgravity
Pau Bitlloch, Xavier Ruiz, Laureano Ramírez-Piscina, Jaume Casademunt

Aerospace Science and Technology 77, 344–352, 2018.

Physical properties of voltage gated pores

Laureano Ramírez-Piscina, José M. Sancho
Eur. Phys. J. B 91, 10, 2018.



Effects of small conductance calcium activated potassium channels in cardiac myocytes

Angelina Peñaranda, Blas Echebarría, Enrique Alvarez-Lacalle, Inmaculada R. Cantalapiedra
Computing in Cardiology 44, 2017.

Control of electrical turbulence by periodic excitation of cardiac tissue

Pavel Buran, Markus Bär, Sergio Alonso, and Thomas Niedermayer
Chaos 27, 113110, 2017.

Ordering Kinetics evaluation of FeAl powders

N. Cinca, A. Isalgué, C. Auguet, A. Concustell, I.G. Cano, J. M. Guilemany, F. Fauth
Intermetallics 91, 78-85, 2017.

Minimal model for calcium alternans due to SR release refractoriness

Inma R. Cantalapiedra, Enrique Alvarez-Lacalle, Angelina Peñaranda, and Blas Echebarria
Chaos 27, 093928, 2017.

Mechanochemical pattern formation in simple models of active viscoelastic fluids and solids

Sergio Alonso, Markus Radszuweit, Harald Engel and Markus Bär
J. Phys D: App. Phys. 50, 434004, 2017.

Nonlinear signaling on biological networks: The role of stochasticity and spectral clustering

Gonzalo Hernandez-Hernandez, Jesse Myers, Enrique Alvarez-Lacalle, and Yohannes Shiferaw
Phys. Rev. E 95, 032313, 2017.



Reentry and Ectopic Pacemakers Emerge in a Three-Dimensional Model for a Slab of Cardiac Tissue with Diffuse Microfibrosis near the Percolation Threshold
Sergio Alonso, Rodrigo Weber dos Santos, and Markus Bär
PLoS one 11 e0166972, 2016.

Nonlinear physics of electrical wave propagation in the heart: a review
Sergio Alonso, Markus Bär, and Blas Echebarria
Rep. Prog. Phys. 79 096601, 2016.

Mechanisms Underlying Electro-Mechanical Cardiac Alternans
Blas Echebarria, Enric Alvarez-Lacalle, Inma R. Cantalapiedra, and Angelina Peñaranda
Nonlinear Dynamics in Biological Systems, 7, SEMA SIMAI Springer Series, 113-128, 2016.

Pattern Formation at Cellular Membranes by Phosphorylation and Dephosphorylation of Proteins
Sergio Alonso
Nonlinear Dynamics in Biological Systems, 7, SEMA SIMAI Springer Series, 63-82, 2016.

Reentry produced by small-scale heterogeneities in a discrete model of cardiac tissue
Sergio Alonso, and Markus Bär
Journal of Physics: Conference Series 727, 012002, 2016.

Reactive Interstitial and Reparative Fibrosis as Substrates for Cardiac Ectopic Pacemakers and Reentries
Rafael Sachetto Oliveira, Bruno Gouvêa de Barros, Johnny Moreira Gomes, Marcelo Lobosco, Sergio Alonso, Markus Bär, Rodrigo Weber dos Santos
Lecture Notes in Computer Science (Bioinformatics and Biomedical Engineering) 9656, 346-357, 2016.

Oscillations and uniaxial mechanochemical waves in a model of an active poroelastic medium: Application to deformation patterns in protoplasmic droplets of Physarum polycephalum
Sergio Alonso, Ulrike Strachauer, Markus Radszuweit, Markus Bär, Marcus J.B. Hauser
Physica D 318, 58-69, 2016.

Acoustic evaluation of modular greenery noise barriers
A. Lacasta, A. Penaranda, I. R. Cantalapiedra, C. Auguet, S. Bures, M. Urrestarazu
Urban Forestry and Urban Greening  20, 172-179, 2016.



Editorial: Simulations of Heart Function
Rodrigo Weber dos Santos, Sergio Alonso, Elizabeth M. Cherry and Joakim Sundnes
BioMed Research International 2015, 626378, 2015.

Simulations of Ectopic Pacemakers in the Heart: Multiple Ectopic Beats Generated by Reentry inside Fibrotic Regions
Bruno Gouvêa de Barros, Rodrigo Weber dos Santos, Marcelo Lobosco, and Sergio Alonso
BioMed Research International 2015, 713058, 2015.

Turbulent Bubble Jets in Microgravity. Spatial Dispersion and Velocity Fluctuations contraction
Pau Bitlloch, Xavier Ruiz, Laureano Ramírez-Piscina, Jaume Casademunt
Microgravity Science and Technology 27, 207-220, 2015.

Transitions between symmetric and nonsymmetric regimes in binary-mixture convection
Esteban Meca , Isabel Mercader , Laureano Ramírez-Piscina
Physica D 303, 39, 2015.

Role of connectivity and fluctuations in the nucleation of calcium waves in cardiac cells
G Hernandez-Hernandez, E Alvarez-Lacalle, Y Shiferaw
Phys. Rev. E 92, 052715, 2015.

Calcium Alternans is Due to an Order-Disorder Phase Transition in Cardiac Cells
E Alvarez-Lacalle, B Echebarria, J Spalding, Y Shiferaw
Phys. Rev. Lett. 114, 108101, 2015.

Cardiac contraction induces discordant alternans and localized block
M. Radszuweit, E. Alvarez-Lacalle, M. Bär, and B. Echebarria
Phys. Rev. E 91, 022703, 2015.



Molecular Na-channel excitability from statistical physics
L Ramírez-Piscina, JM Sancho
EPL (Europhysics Letters) 108, 50008

Spatio-temporal dynamics induced by competing instabilities in two asymmetrically coupled nonlinear evolution equations
David Schueler, Sergio Alonso, Alessandro Torcini, Markus Baer
Chaos: An Interdisciplinary Journal of Nonlinear Science 24 (4), 043142

Modeling domain formation of MARCKS and protein kinase C at cellular membranes
Sergio Alonso, Markus Bär
EPJ Nonlinear Biomedical Physics 2, 1-18

Are SR Ca content fluctuations or SR refractoriness the key to atrial cardiac alternans?: insights from a human atrial model
Carlos A Lugo, Inma R Cantalapiedra, Angelina Peñaranda, Leif Hove-Madsen, Blas Echebarria
American Journal of Physiology-Heart and Circulatory Physiology 306, H1540-H1552

Dynamics of reaction-diffusion patterns controlled by asymmetric nonlocal coupling as a limiting case of differential advection
Julien Siebert, Sergio Alonso, Markus Bär, Eckehard Schöll
Physical Review E 89, 052909

Single-molecule diffusion in a periodic potential at a solid-liquid interface
Michael J Skaug, Anna M Lacasta, Laureano Ramirez-Piscina, Jose M Sancho, Katja Lindenberg, Daniel K Schwartz
Soft matter 10, 753-759

Propagation malfunctions due to gap junctions dysregulation
I.R. cantalapiedra, A. Peñaranda, B. Echebarría
Computing in Cariology conference (CinC) 41, 1045




Modeling calcium dynamics in human atria
Inma R Cantalapiedra, Carlos Lugo, Angelina Penaranda, Leif Hove-Madsen, Blas Echebarria
Computing in Cardiology Conference (CinC) 40, 1071-1074

Effect of RyR2 refractoriness and hypercalcemia on calcium overload, spontaneous release, and calcium alternans
Enric Alvarez-Lacalle, Angelina Penaranda, Inma R Cantalapiedra, Leif Hove-Madsen, Blas Echebarria
Computing in Cardiology Conference (CinC) 40, 683-686

Noise focusing and the emergence of coherent activity in neuronal cultures
Javier G Orlandi, Jordi Soriano, Enrique Alvarez-Lacalle, Sara Teller, Jaume Casademunt
Nature Physics 9, 582-590

Negative tension of scroll wave filaments and turbulence in three-dimensional excitable media and application in cardiac dynamics
Sergio Alonso, Markus Bär, Alexander V Panfilov
Bulletin of mathematical biology 75, 1351-1376

Twists of Opposite Handedness on a Scroll Wave
Patricia Dähmlow, Sergio Alonso, Markus Bär, Marcus JB Hauser
Physical review letters 110, 234102

The timing statistics of spontaneous calcium release in cardiac myocytes
Mesfin Asfaw, Enric Alvarez-Lacalle, Yohannes Shiferaw
PloS one 8, e62967

Speeding chemical reactions by focusing
AM Lacasta, L Ramírez-Piscina, JM Sancho, K Lindenberg
The Journal of chemical physics 138, 144502

Reentry near the percolation threshold in a heterogeneous discrete model for cardiac tissue
Sergio Alonso, Markus Bär
Physical review letters 110, 158101

Intracellular Mechanochemical Waves in an Active Poroelastic Model
Markus Radszuweit, Sergio Alonso, Harald Engel, Markus Bär
Physical review letters 110, 138102

Dependency of calcium alternans on ryanodine receptor refractoriness
Enric Alvarez-Lacalle, Inma R Cantalapiedra, Angelina Peñaranda, Juan Cinca, Leif Hove-Madsen, Blas Echebarria
PloS one 8, e55042