EDUCATION
•
B.Sc. (Cum Laude), Hebrew University, Jerusalem, 1993–1996,
Physics / Mathematics
• Ph.D., University of Texas at
Austin, 1996–2003, Statistical Physics, Adviser: Linda E.
Reichl
Thesis Title: Ferromagnetic properties of partially filled two-dimensional Ising lattices
EMPLOYMENT
HISTORY
• 2007-Now : Research Associate, Center for Computational Biology and Bioinformatics, School of Informatics,
Indiana University Purdue University, Indianapolis, Indiana USA
• 2003-2006 : Research
Associate, Department of Physics, Florida International
University, Miami, Florida USA
• 1999-2003 : Research
Assistant, Department of Physics, University of Texas, Austin, Texas
USA
• 1996-2003 : Teaching Assistant, Department of
Physics, University of Texas, Austin, Texas USA
PUBLICATIONS
In preparation
• Eshel Faraggi, Yuedong Yang, Bin Xue, and Yaoqi Zhou, "Predicting protein contact numbers and half sphere exposure". (2007)
• Eshel Faraggi, Yuedong Yang, and Yaoqi Zhou, "A new level of accuracy for protein secondary structure prediction". (2009)
• Eshel Faraggi, Shesheng Zheng, Bin Xue, Yuedong Yang, and Yaoqi Zhou, "Using the topology of the dihedral angles to improve the
accuracy of protein structure prediction". (2007)
• Eshel Faraggi, Bernard S. Gerstman, and Shijun Wang, "Linear approximation for shock wave production by the
spherical absorber". (2006)
• Eshel Faraggi," A superposition test for the emergence of
nonlinearities in a laser irradiated spherical absorber". (2008)
Forthcoming
• Eshel Faraggi, Yuedong Yang, Shesheng Zhang, and Yaoqi Zhou, "A new level of accuracy for the prediction of protein local structure in continuous representation and the effect of its substitution for discrete secondary structure prediction ". Submitted (2008)
• Eshel Faraggi, Bernard S. Gerstman, and Shijun Wang, "Effect of temporal pulse shape in laser absorption by a spherical absorber". Submitted to the Journal of Biomedical Optics (2008)
• Eshel Faraggi, "An electrostatic model for biological cell division". Submitted to PLoS One (2009)
Refereed
• Yaoqi Zhou, and Eshel Faraggi;
"Prediction of one-dimensional structural properties of proteins by integrated neural network". Protein Structure Prediction: Method and Algorithms , edited by H. Rangwala and G. Karypis, Wiley, (2009)
• Bin Xue, Eshel Faraggi, and Yaoqi Zhou;
"Predicting residue-residue contact maps by a two-layer, integrated neural-network method". Proteins 76, 176-183 (2009)
• Eshel Faraggi, Bin Xue, and Yaoqi Zhou,
"Improving the prediction accuracy of residue solvent accessibility and real-value backbone torsion angles of proteins by guided-learning through a two-layer neural network
". Proteins: Structure, Function and Bioinformatics, Proteins 74, 857-871 (2009)
• Eshel Faraggi, Daniel T. Robb;
"Locally converging algorithms for determining the critical temperature in Ising systems". Physical Review B, 78(13) 134416 (2008)
• Bin Xue, Ofer Dor, Eshel Faraggi, and Yaoqi Zhou, "Real-value prediction of backbone torsion angles". Proteins: Structure, Function and Bioinformatics, Volume 72, Issue 1, 427-433 (2008)
• Eshel Faraggi, and Bernard S. Gerstman, "Acoustical resonant absorption of pulsed laser radiation by a spherical absorber". J. Appl. Phys. 102(12), 123505 (2007). Selected for publication in the Virtual Journal of Biological Physics Research, Volume 15, Issue 1. Selected for publication in the January 2008 issue of the Virtual Journal of Ultrafast Science.
• Eshel Faraggi, Bernard S. Gerstman, and Jinming Sun, "The emergence of nonlinear behavior and chaos in laser irradiated spherical absorber". Chaos 17(1), 013101 (2007). Selected for publication in the Virtual Journal of Biological Physics Research, Volume 13, Issue 3.
• Eshel Faraggi, Linda E. Reichl, and Dan T. Robb, "Magnetic behavior of partially filled finite Ising surfaces". Physical Review B 74(1) 014407 (2006) http://dx.doi.org/10.1103/PhysRevB.74.014407
• Eshel Faraggi, "Explicit solutions to phenomenological models of magnetization reversal of thin ferromagnetic films in the presence of a sawtooth magnetic field". Journal of Magnetism and Magnetic Materials 303(1), 49 (2006) http://dx.doi.org/10.1016/j.jmmm.2005.10.228
• Eshel Faraggi, Bernard S. Gerstman, and Jinming Sun, "Biophysical Effects of Pulsed Lasers in the Retina and Other Tissues with Strongly Absorbing Particles: Shockwaves and Explosive Bubble Generation". Journal of Biomedical Optics 10, 64029 (2005)
• Corneliu Nistor, Eshel Faraggi, J. L. Erskine, "Magnetic Energy Loss in Permalloy Thin Films and Microstructures". Physical Review B 72, 014404 (2005)
• Dan T. Robb, Linda E. Reichl, and Eshel Faraggi, "Simulation of hysteresis in magnetic nanoparticles with Nose thermostatting". Physical Review E 67(5), 056130 (2003).
Proceedings
•
Eshel Faraggi, "Nonlinear behavior in Ferromagnetism: Simple
observations and possible implications".
http://arxiv.org/abs/nlin.SI/0209006
•Bernard S.
Gerstman, Shijun Wang, and Eshel Faraggi, "Ab-Initio
Calculations for Shock Wave and Bubble Production with Gaussian
Temporal Laser Pulses". Proceedings of the SPIE, Progress in
Biomedical Optics and Imaging, Vol. 5319, pp. 217-223
(2004)
•Eshel Faraggi, Shijun Wang, and Bernard Gerstman,
"Stress confinement, shock wave formation, and laser-induced
damage". Proceedings of the SPIE Vol. 5695, pp. 209-215
(2005)
•Eshel Faraggi, Bernard S. Gerstman, and Shijun
Wang, "Response to pulsed radiation by a spherical solid
absorber immersed in a transparent fluid". Proceedings of
the SPIE Vol. 5696, pp. 101-109 (2005)
•Eshel Faraggi,
Bernard S. Gerstman, "Resonant absorption in nanometer gold
spherical particles". Proceedings of the SPIE, Vol. 6084,
pp. 608405/1-12 (2006)
•Bernard S. Gerstman, Eshel Faraggi, and
Jinming Sun, "Chaos in the pressure generated by laser
absorption by microparticles". Proceedings of the SPIE, Vol.
6084, pp. 608406/1-8 (2006)
•Eshel Faraggi, Bernard S. Gerstman, " Analyzing chaos in the pressure generated by
laser absorption by microparticles". Proceedings of the SPIE, Vol.
6436, pp. 643617 (2007)
Books
•
Eshel Faraggi, "My Adventures in Ferromagnetism: Properties of Partially Filled Two-Dimensional Ising Systems". Invited by VDM Verlag - Germany (2009) ISBN 978-3-639-15942-4
LECTURES
•
Eshel Faraggi, Linda E. Reichl, and Dan T. Robb, "Monte-Carlo
Simulations in Ferromagnetism: Semi-Filled Ising Surfaces".
American Physical Society, March 2002 meeting, Indianapolis,
Indiana.
• Eshel Faraggi, "Nonlinear behavior in
Ferromagnetism: Simple Observations and possible implications".
American Physical Society, March 2002 meeting, Indianapolis,
Indiana.
• Eshel Faraggi, Linda E. Reichl, and Dan T.
Robb, "Monte-Carlo Simulations in Ferromagnetism:
Semi-Filled Ising Surfaces". American Physical Society,
March 2003 meeting, Austin, Texas.
• Eshel Faraggi, Linda
E. Reichl, and Dan T. Robb, "Locally converging algorithms
in two dimensional ferromagnetism". American Physical
Society, March 2003 meeting, Austin, Texas.
• Eshel
Faraggi, "Ferromagnetic Properties of Partially Filled
Two-Dimensional Ising Lattices". Final oral defense, April
2003, University of Texas, Austin, Texas.
• Bernard S.
Gerstman, Shijun Wang, and Eshel Faraggi, "Ab-Initio
Calculations for Shock Wave and Bubble Production with Gaussian
Temporal Laser Pulses". SPIE Photonics West, January 2004,
San Jose, California.
• Eshel Faraggi, Bernard S.
Gerstman, and Shijun Wang, "Resonant Absorption".
Baltimore Meeting on Laser Safety, Baltimore, Maryland (March
2004)
• Eshel Faraggi, "What is complexity?",
Seminars given at the physics departments of the Hebrew
University, Tel-Aviv University, Technion, Weizmann Institute of
Science, Bar-Ilan University, and Ben-Gurion University. Israel
(January 2005)
• Eshel Faraggi, Bernard S. Gerstman, and
Shijun Wang, "Response to pulsed radiation by a spherical
solid absorber immersed in a transparent fluid". SPIE
Photonics West, January 2005, San Jose, California.
•
Eshel Faraggi, Shijun Wang, and Bernard Gerstman, "Stress
confinement, shock wave formation, and laser-induced damage".
SPIE Photonics West, January 2005, San Jose, California.
•
Eshel Faraggi, "An electrostatic model for biological cell
division". Seminars given at the Hebrew University,
Jerusalem, Israel and at the Ben-Gurion University, Beer-Sheva,
Israel (January 2006)
• Eshel Faraggi, Bernard S.
Gerstman, "Resonant absorption in nanometer gold spherical
particles". SPIE Photonics West, January 2006, San Jose,
California.
• Bernard S. Gerstman, Eshel Faraggi, and
Jinming Sun, "Chaos in the pressure generated by laser
absorption by microparticles". SPIE Photonics West, January
2006, San Jose, California.
• Eshel Faraggi, Bernard S.
Gerstman, "Resonant absorption in micrometer and nanometer
absorbing particles". American Physical Society, March 2006
meeting, Baltimore, Maryland.
• Eshel Faraggi, “Scaling
of hysteresis in phenomenological models of thin ferromagnetic
films”. American Physical Society, March 2006 meeting,
Baltimore, Maryland.
SOCIETIES
•
1996-Now American Physical Society
• 1997-2001 American
Association for the Advancement of Science
• 2004-Now
Israeli Physical Society
TEACHING
• Physics 102N : E&M Lab, undergraduates, UT Austin.
• PS303 : Physical Science - Mechanics, undergraduates,
UT Austin
• Revised Ph102N lab-manual with Roger
Bengtson -- lab supervising professor. UT Austin, Summer 1998.
REFEREE DUTIES
• Optics and Lasers in Engineering
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