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Saúl Ares

Ramón y Cajal Fellow at
Grupo Interdisciplinar de Sistemas Complejos and
Departamento de Matemáticas,
Universidad Carlos III de Madrid

Assistant Editor of the Spanish Journal of Physics

Address: Departamento de Matemáticas
Universidad Carlos III de Madrid
Avenida de la Universidad 30
28911 Leganés, Madrid, Spain

Phone: +34 91624 9977


Google Scholar page:
Saúl Ares

Research interests

Keywords: Systems Biology, Developmental Biology, Biological Clocks, Synthetic Biology, Nonlinear Dynamics, Delay Differential Equations, Statistical Mechanics, Stochastic Processes, Numerical Simulation, DNA, Complex Systems.

Grants as Principal Investigator

Title: Physics of development: pattern formation in embryos and cyanobacteria (PHYSDEV)
Project code: FIS2012-32349
Funding agency: Ministry of Economy and Competitiveness (Spain)
Funding awarded: 21060 euros
Period funded: 2013-2015

Publications in international peer-reviewed journals

Lucas Wetzel, Luis G. Morelli, Andrew C. Oates, Frank Jülicher and Saúl Ares:
Synchronization in the presence of distributed delays, arXiv:1206.2288v2 [nlin.CD].

Javier Muñoz-García and Saúl Ares:
Formation and maintenance of nitrogen fixing cell patterns in filamentous cyanobacteria, Proceedings of the National Academy of Sciences of the United States of America 113, 6218-6223 (2016). Link, PDF file.
Press release (English) and video (Spanish, English subtitles available) here.
Press release in Chinese.
Blog entry in Nada es Gratis (Spanish).

Fernanda M. Rodríguez-Tornos, Carlos G. Briz, Linnea A. Weiss, Alvaro Sebastián-Serrano, Saúl Ares, Marta Navarrete, Laura Frangeul, Maria Galazo, Denis Jabaudon, José A. Esteban and Marta Nieto:
Cux1 Enables Interhemispheric Connections of Layer II/III Neurons by Regulating Kv1-Dependent Firing, Neuron 89, 494-506 (2016). Link.
Press release and video (in Spanish) here.

David J. Jörg, Luis G. Morelli, Saúl Ares and Frank Jülicher:
Synchronization dynamics in the presence of coupling delays and phase shifts, Physical Review Letters 112, 174101 (2014). Link, PDF file.

Lola Bajard, Luis G. Morelli, Saúl Ares, Jacques Pécréaux, Frank Jülicher and Andrew C. Oates:
Wnt-regulated dynamics of positional information in zebrafish somitogenesis, Development 141, 1381-1391 (2014). Link (open access).
Movie from the article displayed as Featured Movie in Development's homepage.

Pau Formosa-Jordan, Marta Ibañes, Saúl Ares and José María Frade:
Lateral inhibition and neurogenesis: novel aspects in motion, International Journal of Developmental Biology 57, 341-350 (2013). Link, PDF file.

Koichiro Uriu, Saúl Ares, Andrew C. Oates and Luis G. Morelli:
Dynamics of mobile coupled phase oscillators, Physical Review E 87, 032911 (2013). Link, PDF file.

E. Ullner, S. Ares, L. G. Morelli, A. C. Oates, F. Jülicher, E. Nicola, R. Heussen, D. Whitmore, K. Blyuss, M. Fryett, A. Zakharova, A. Koseska, N. R. Nene, A. Zaikin:
Noise and oscillations in biological systems: multidisciplinary approach between experimental biology, theoretical modelling and synthetic biology, International Journal of Modern Physics B 26, 1246009 (2012). Link, PDF file.

Christian Schröter, Saúl Ares, Luis G. Morelli, Alina Isakova, Korneel Hens, Daniele Soroldoni, Martin Gajewski, Frank Jülicher, Sebastian J. Maerkl, Bart Deplancke and Andrew C. Oates:
Topology and dynamics of the zebrafish segmentation clock core circuit, PLoS Biology 10, e1001364 (2012). Link (open access).
Article heading the "Weekly Editor's Picks" at PLoS Biology's homepage. Editorial synopsis.
Nature Reviews Genetics published a Research Highlight.

Pau Formosa-Jordan, Marta Ibañes, Saúl Ares and José María Frade:
Regulation of neuronal differentiation at the neurogenic wavefront, Development 139, 2321-2329 (2012). Link, PDF file, supplementary material.
Article highlighted in the "In this issue" section of Development: PDF file. SA is a senior and corresponding author of this work.

Saúl Ares, Luis G. Morelli, David J. Jörg, Andrew C. Oates and Frank Jülicher:
Collective Modes of Coupled Phase Oscillators with Delayed Coupling, Physical Review Letters 108, 204101 (2012). Link, PDF file.

Koichiro Uriu, Saúl Ares, Andrew C. Oates and Luis G. Morelli:
Optimal cellular mobility for synchronization arising from the gradual recovery of intercellular interactions, Physical Biology 9, 036006 (2012). Link
Main text, PDF file.
Supplementary text, PDF file.

Luis G. Morelli, Koichiro Uriu, Saúl Ares and Andrew C. Oates:
Computational Approaches to Developmental Patterning, Science 336, 187-191 (2012). Link, Final PDF draft.

Andrew C. Oates, Luis G. Morelli and Saúl Ares:
Patterning embryos with oscillations: structure, function and dynamics of the vertebrate segmentation clock, Development 139, 625-639 (2012). Link, PDF file.

Daniela Roellig, Luis G. Morelli, Saúl Ares, Frank Jülicher and Andrew C. Oates:
SnapShot: The Segmentation Clock, Cell 145, 800 (2011). Link
First Enhanced Snapshot ever to be published by Cell, it includes multimedia features.

Leah Herrgen, Saúl Ares, Luis G. Morelli, Christian Schröter, Frank Jülicher and Andrew C. Oates:
Intercellular coupling regulates the period of the segmentation clock, Current Biology 20, 1244-1253 (2010). Link
Main text, PDF file.
Supplementary text, PDF file.
Article selected for the cover of the issue of July 27, 2010 of Current Biology.

George Kalosakas and Saúl Ares:
Dependence on temperature and GC content of bubble length distributions in DNA, The Journal of Chemical Physics 130, 235104 (2009). PDF file.
(Both authors contributed equally to this work.)

Luis G. Morelli, Saúl Ares, Leah Herrgen, Christian Schröter, Frank Jülicher and Andrew C. Oates:
Delayed coupling theory of vertebrate segmentation, The HFSP Journal 3, 55-66 (2009). PDF file.
(LGM and SA contributed equally to this work.)
Selected in the Virtual Journal of Biological Physics Research.

Saúl Ares and Angel Sánchez:
Modelling Disorder: the Cases of Wetting and DNA Denaturation, The European Physical Journal B 56, 253 (2007). PDF file.

Saúl Ares and George Kalosakas:
Distribution of bubble lengths in DNA, Nano Letters 7, 307 (2007). PDF file.

Saúl Ares and Mario Castro:
Hidden structure in the randomness of the prime number sequence?, Physica A 360, 285 (2006). PDF file.

Saúl Ares, Nikos K. Voulgarakis, Kim Ø. Rasmussen and Alan R. Bishop:
Bubble Nucleation and Cooperativity in DNA Melting, Physical Review Letters 94, 035504 (2005). PDF file.
Selected in the Virtual Journal of Biological Physics Research.

Saúl Ares and Angel Sánchez:
Equilibrium roughening transition in a 1D modified sine-Gordon model, Physical Review E 70, 061607 (2004). PDF file.

Saúl Ares, Angel Sánchez and Alan R. Bishop:
Super-roughening as a disorder-dominated flat phase, Europhysics Letters 66, 552 (2004). PDF file.

Saúl Ares, José A. Cuesta, Angel Sánchez and Raúl Toral:
Apparent phase transitions in finite one-dimensional sine-Gordon lattices, Physical Review E 67, 046108, (2003). PDF file.

PhD Thesis (in spanish)

Modelos de Superficies e Intercaras: Transiciones de Fase, Desorden y Aplicaciones
(S. Ares' PhD Thesis: Surface and Interface Models: Phase Transitions, Disorder and Applications).
PDF file in A4 page format (3.3M).
PDF file in B5 page format (3.4M).
My thesis at the archive of Universidad Carlos III de Madrid: link.

Other publications

Saúl Ares, Luis G. Morelli, Koichiro Uriu and Andrew C. Oates:
Formación de patrones en el desarrollo embrionario, Revista Española de Física, Vol. 26, No. 4, 23-30 (2012). PDF file.
Article selected for the issue's cover.

Research stays longer than a month

Institution: Institut Mediterrani de Estudis Avançats (IMEDEA), CSIC-Universitat de les Illes Balears, Palma de Mallorca, Balearic Islands, Spain.
Date: 10/14/2001 - 11/16/2001
Reaserch subject: study of the sine-Gordon model in one dimension.

Institution: École Normale Superiéure de Lyon, Lyon, France.
Date: 02/23/2004 - 04/25/2004
Research subject: DNA dynamics and statistics: hairpin formation.

Institution: Center for Nonlinear Studies (CNLS), Los Alamos National Laboratory, Los Alamos, New Mexico, USA.
Date: 05/18/2004 - 07/18/2004
Research subject: statistical mechanics of DNA: denaturation transition.

Institution: Max Planck Institute for the Physics of Complex Systems, Dresden, Germany
Date: 09/01/2005 - 09/30/2011
Research subject: theoretical studies of embryonic development

Institution: Centro Nacional de Biotecnología - CSIC, Madrid, Spain
Date: 10/01/2011 - 08/31/2014
Research subject: experimental and theoretical work on Synthetic Biology