CURRICULUM VITAE

Myself the day I defended my PhD thesis and the landscape of Las Médulas, an ancient roman gold
mine in the beautiful region of El Bierzo, in northwest Spain. It is an UNESCO World Heritage Site.

Last Name: Ares First name: Saúl
Birth date : July 17, 1977. Birthplace: Newark, NJ, USA
Gender: male. Marital status: single
Affiliation: Max-Planck-Institut für Physik komplexer Systeme
Position: Postdoc Researcher
Address: Nöthnitzer Str. 38, D-01187 Dresden, Germany
Phone: +49 351-871-1407
e-mail: saulctp(at)mpipks-dresden.mpg.de (remove ctp to send me mail)
URL: http://www.mpipks-dresden.mpg.de/

Also member of the GISC (Grupo Interdisciplinar de Sistemas Complejos).

Degrees

Ph.D. Physics of Complex Systems	Universidad Carlos III de Madrid	2005
M.S. Applied Mathematics	Universidad Carlos III de Madrid	2002
B.S. Theoretical Physics	Universidad Complutense de Madrid	2000

Research interests

• Segmentation and somitogenesis in vertebrates.
• Nonlinear dynamics, coupled oscillators and time delay.
• Neurogenesis in the retina.
• Statistical physics of extended systems.
• Growth models: continuous and discrete models.
• DNA statistical mechanics: thermal denaturation.
• DNA dynamics: hairpin formation.
• Number theory and its relation with statistical mechanics.
• Complex Systems.

Keywords: Nonlinear Physics, Statistical Mechanics, Stochastic Processes, Numerical Simulation, Monte Carlo, Surface Growth, DNA, Biophysics, Number Theory, Complex Systems.

Publications

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). Link (free access).
(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.

Publications in preparation

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.

Contributions to conferences and workshops

Coupling with delay: collective processes control period and pattern in vertebrate segmentation, invited talk at the Symposium on the Mathematical Modeling of Biological Pattern Formation. Dresden, Germany, December 2007.

Waves of gene expression in Zebrafish somitogenesis, poster at the 5th European Zebrafish Genetics and Development Meeting. Amsterdam, the Netherlands, July 2007.

Waves of gene expression in vertebrate segmentation, talk at Statphys 23, the XXIII IUPAP International Conference on Statistical Physics. Genova, Italy, July 2007.

Distribution of bubble lengths in DNA talk at the German Physical Society, Spring Meeting of the Division Condensed Matter 2007. Regensburg, Germany, March 2007.

Waves of gene expression in vertebrate segmentation poster at BioLateral Meeting 2007. Paris, France, January 2007.

Mathematical Modeling Helps to Understand Somitogenesis talk at The Biophysics of Developing Systems. Brno, Czech Republic, November 2006.

Somitogenesis: A Mathematical Modeling poster at The Biophysics of Developing Systems. Brno, Czech Republic, November 2006.

Genetic Oscillations in Vertebrate Somitogenesis: A Physical Approach, lecture at Physbio 2006. St. Etienne de Tineé, France, September 2006.

Introduction to Biophysics and Non-Linear models of DNA, lecture at Physbio 2006. St. Etienne de Tineé, France, September 2006.

Distribution of Bubble Lengths in DNA, poster at XIV Congreso de Física Estadística FisEs 2006. Granada, Spain, September 2006.

Bubble Nucleation and Cooperativity in DNA Melting, talk at DPG - spring meeting of the Division Condensed Matter. Dresden, Germany, March 2006.

Theory of DNA Melting: Hairpins, Bubbles and Cooperativity, talk at BIFI 2006 - II International Conference: From Physics to Biology: the interface between experiment and computation. Zaragoza, Spain, February 2006.

Nucleación de Burbujas y Efectos Cooperativos en la Desnaturalización Térmica del ADN, talk at XIII Congreso de Física Estadística FisEs 2005. Madrid, Spain, June 2005.

Super-roughening as a disorder dominated flat phase, talk at SK-SSW'2005, Vth Stranski-Kaischew Surface Science Workshop: "Nanophenomena at surfaces - Fundamentals of Exotic Condensed Matter Properties". Pamporovo Ski Center - Bulgaria, 19 - 25 February, 2005.

Theory of Bubble Nucleation and Cooperativity in DNA Melting, poster at II Congreso Nacional BIFI 2005. Zaragoza, Spain, February 2005.

Application of the Peyrard-Bishop Model to Short DNA Sequences, talk at Seminar of the International Research Training Group Non-Equilibrium Phenomena and Phase Transitions in Complex Systems: from Boltzmann equation to Brownian Ratchets. Bayreuth, Germany, September 28 - October 2, 2004.

Disorder universality: the case of DNA denaturation, poster at BIFI 2004 - I International Conference: Biology after the genome: a physical view. Zaragoza, Spain, February 2004.

Disorder universality: the case of DNA denaturation, poster at III meeting of the Xarxa Temática: Nonlinear Dynamics of Spatio-Temporal Selforganization. Barcelona, Spain, February 2004.

Sobre las propiedades estadísticas de los números primos, poster at XII Congreso de Física Estadística FisEs 2003. Spain, October 2003.

'Universalidad en el desorden': transición de desnaturalización del ADN, poster at XII Congreso de Física Estadística FisEs 2003. Pamplona, Spain, October 2003. (This poster won one of the awards given to the three best posters in the conference).

Disorder universality: the case of DNA denaturation, talk at Seminar of the International Research Training Group: Non-Equilibrium Phenomena and Phase Transitions in Complex Systems. Benasque, Spain, September 2003.

Elusive phase transitions: Does super-roughening exist?, poster at Seminar of the International Research Training Group: Non-Equilibrium Phenomena and Phase Transitions in Complex Systems. Benasque, Spain, September 2003.

Transiciones de fase termodinámicas en modelos de crecimiento en una dimensión. Transiciones aparentes en sistemas de tamaño finito, poster at XXIX Reunión bienal de la Real Sociedad Española de Física. Madrid, Spain, July 2003.

Apparent phase transitions in finite-size one-dimensional sine-Gordon models, poster at Seminar of the International Research Training Group: Non-Equilibrium Phenomena and Phase Transitions in Complex Systems. Ávila, Spain, September 2002.

Transiciones de fase en modelos de crecimiento unidimensionales, poster at XI Congreso de Física Estadística FisEs 2002. Tarragona, Spain, May 2002.

Seminars

Bubble Nucleation and Cooperativity in DNA Melting, given at Centro de Física do Porto, Porto, Portugal, May 6, 2005.

Super-roughening as a disorder dominated flat phase, given at the Center for Nonlinear Studies (CNLS), Los Alamos National Laboratory, Los Alamos, USA, July 2004.

Attendance to conferences, workshops and tutorials

III Workshop on instabilities and fluctuations in surface growth. Barcelona, Spain, February 2003.

Workshop on SDE and SPDE. Edinburgh, United Kingdom, March 31 - April 4, 2003.

Advanced Monte Carlo methods. CECAM tutorial, Lyon, France, 17 - 28 January, 2005. Expenses covered by a grant.

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.

Miscellanea

Teaching experience: Assitant teacher of Linear Algebra (100 hours, Universidad Carlos III de Madrid, 2003-2005). Four practicals tutored (two in 2007 and two in 2008) in the topic "Biophysics" in the International PhD Program Dresden. Tutor of the "Biophysics" project in the Porto Physics Summer School (2008).

Member of the European Physical Society (since 2008) and of the Spanish Physical Society (since 2002).

Referee for the scientific journals: Physical Review Letters, Physical Review E, Journal of Biological Physics, Chemical Physics Letters, Physica A, Physica B.

Fluent in English, Spanish, Portuguese and Galician. German: medium level, French and Italian: low level.

Operating systems: Linux, UNIX, MacOS and MS Windows administration.

Programming languages: C and FORTRAN. Notions of C++ and Java.

Mathematical packages: Matlab, Maple, Mathematica.

Graphics: Xmgrace, Gnuplot, Xfig, GIMP.

Text processing: L^ATEX, OpenOffice, StarOffice, MS Office.

Numerical integration of stochastic differential equations and stochastic partial differential equations.

Monte Carlo methods. Parallel tempering (replica exchange) simulations. Dynamical Monte Carlo.

For personal use: my movies.