Publications |
| Recent papers and publications Conference proceedings & book chapters Selected earlier publications |
Recent papers and publications |
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Mikko Vehkaperä, Yoshiyuki Kabashima, Saikat Chatterjee, Erik Aurell, Mikael Skoglund, Lars Rasmussen, Analysis of Sparse Representations Using Bi-Orthogonal Dictionaries arXiv:1204.4065 (2012) Erik Aurell, Krzysztof Gawȩdzki, Carlos Mejía-Monasterio, Roya Mohayaee, Paolo Muratore-Ginanneschi, Refined Second Law of Thermodynamics for fast random processes arXiv:1201.3207 (2012) Erik Aurell, Carlos Mejía-Monasterio, Paolo Muratore-Ginanneschi Boundary layers in stochastic thermodynamics Phys. Rev. E 85, 020103(R) (2012) Erik Aurell, Hamed Mahmoudi Dynamic mean-field and dynamic cavity for diluted Ising systems Phys. Rev. E 85, 031119 (2012) Erik Aurell, Magnus Ekeberg Inverse Ising inference using all the data Phys. Rev. Lett. 108, 090201 (2012) Erik Aurell, Carlos Mejía-Monasterio, Paolo Muratore-Ginanneschi, Optimal protocols and optimal transport in stochastic thermodynamics Phys. Rev. Lett. 106, 250601 (2011) Erik Aurell, Hamed Mahmoudi, Three lemmas on the dynamic cavity method Communications in Theoretical Physics, 56:1, pp. 157-162 (2011) Sebastian Koelling, Nicolas Innocenti, Andreas Schulze, Matthieu Gilbert, AJay Kumar Kambham, and Wilfried Vandervorst, In-situ observation of non-hemispherical tip shape formation during laser-assisted atom probe tomography J. Appl. Phys. 109, 104909 (2011) Sebastian Koelling, Nicolas Innocenti, Geert Hellings, Matthieu Gilbert, Ajay Kumar Kambham, Kristin De Meyer, Wilfried Vandervorst, Characteristics of cross-sectional atom probe analysis on semiconductor structures Ultramicroscopy 111(6):540-545 (2011) Anita Göndör, Alejandro Fernandez Woodbridge, Chenxi Shi, Erik Aurell, Marta Imreh, Rolf Ohlsson, Window into the Complexities of Chromosome Interactomes Cold Spring Harb. Symp. Quant. Biol. 75: 493-500 (2011) Aymeric Fouquier d'Hérouël, Françoise Wessner, David Halpern, Joseph Ly-Vu, Sean Kennedy, Pascale Serror, Erik Aurell, Francis Repoila, A simple and efficient method to search for selected primary transcripts: noncoding- and antisense RNAs in the human pathogen Enterococcus faecalis Nucl. Acids Res. 39(7):e46 (2011) Erik Aurell, Hamed Mahmoudi, A message-passing scheme for non-equilibrium stationary states J. Stat. Mech P04014 (2011) Hong-Li Zeng, Erik Aurell, Mikko Alava, Hamed Mahmoudi, Network inference using asynchronously updated kinetic Ising model Phys. Rev. E 83, 041135 (2011) John Hertz, Yasser Roudi, Andreas Thorning, Joanna Tyrcha, Erik Aurell, Hong-Li Zeng, Inferring network connectivity using kinetic Ising models BMC Neuroscience 2010, 11(Suppl 1):P51 (2010) Supriya Krishnamurthy, John Ardelius, Erik Aurell, Mads Dam, Rolf Stadler, Fetahi Wuhib, The Accuracy of Tree-based Counting in Dynamic Networks Proceeding of the 29th ACM SIGACT-SIGOPS symposium on Principles of distributed computing (2010) Vishwambhar Rathi, Erik Aurell, Lars Rasmussen, Mikael Skoglund, Bounds on Thresholds related to Maximum Satisfiability of Regular Random formulas 6th International symposium on turbo codes & iterative information processing, 2010. [arXiv:1004.2425] Vishwambhar Rathi, Erik Aurell, Lars Rasmussen, Mikael Skoglund, Bounds on Threshold of Regular Random k-SAT SAT 2010 [arXiv:1002.1290] Erik Aurell, Charles Ollion, Yasser Roudi, Dynamics and performance of susceptibility propagation on synthetic data Eur. Phys. J. B 77(4): 587-595 (2010) Aymeric Fouquier d'Hérouël, Anna Birgersdotter, Maria Werner, FR-like EBNA1 binding sites in the human genome Virology 405(2): 524-529 (2010) Maria Werner, Erik Aurell, A computational study of the lambda-lac mutants Phys. Biol. 6 046007 (2009) Yasser Roudi, Erik Aurell, John Hertz, Statistical physics of pairwise probability models Front. Comput. Neurosci. 3 22 [arXiv:0905.1410] (2009) Seung Ki Baek, Petter Minnhagen, Sebastian Bernhardsson, Kweon Choi, Beom Jun Kim, Flow improvement caused by agents who ignore traffic rules Phys. Rev. E 80, 016111 (2009) Seung Ki Baek, Petter Minnhagen, Hiroyuki Shima, Beom Jun Kim, Phase transition of q-state clock model on heptagonal lattices Phys. Rev. E 80, 011133 (2009) Seung Ki Baek, Hiroyuki Shima, Beom Jun Kim, Curvature-induced frustration in the XY Model on hyperbolic surfaces Phys. Rev. E 79, 060106(R) (2009) Erik Aurell, René Pfitzner, Gaussian Belief with dynamic data and in dynamic network Euro. Phys. Lett. 87 68004 Maria Werner, Szabolcs Semsey, Kim Sneppen, Sandeep Krishna Dynamics of Uptake and Metabolism of Small Molecules in Cellular Response Systems PLoS ONE 4(3): e4923 (2009) Mikko Alava, John Ardelius, Erik Aurell, Petteri Kaski, Supriya Krishnamurthy, Pekka Orponen, Sakari Seitz, Circumspect descent prevails in solving random constraint satisfaction problems PNAS 105(40) 15253-15257 (2008) Supriya Krishnamurthy, Sameh El-Ansary, Erik Aurell, Seif Haridi, Comparing Maintenance Strategies for Overlays [arXiv:0710.0386] Proc. 16th Euromicro Conference on Parallel, Distributed and Network-Based Processing (PDP 2008) 473-482 Supriya Krishnamurthy, Sameh El-Ansary, Erik Aurell, Seif Haridi, An Analytical Study of a Structured Overlay in the presence of Dynamic Membership [arXiv:0710.0270] IEEE/ACM Transactions on Networking 16 814-825 (2008) Maria Werner, LiZhe Zhu, Erik Aurell, Cooperative action in eukaryotic gene regulation: physical properties of a viral example Physical Review E 76 061909 (2007) [arXiv:0706.1852] Maria Werner, Ingemar Ernberg, JieZhi Zou, Jenny Almqvist, Erik Aurell, Epstein-Barr virus latency switch in human B-cells: a physico-chemical model BMC Systems Biology 1:40 (2007) John Ardelius, Erik Aurell, Supriya Krishnamurthy, Clustering of solutions in hard satisfiability problems J Stat Phys; Theo Exp: P10012 (2007) Erik Aurell, Aymeric Fouquier d'Hérouël, Claes Malmnäs, Massimo Vergassola, Transcription factor concentrations versus binding site affinities in the yeast S. cerevisiae Phys. Biol. 4 134-143 (2007) John Ardelius, Erik Aurell, Behavior of heuristics on large and hard satisfiability problems Phys. Rev. E 74, 037702 (2006) Erik Aurell, Paolo Muratore-Ginanneschi, Optimal hedging of Derivatives with transaction costs International Journal of Theoretical and Applied Finance vol. 9, No. 7, 1051-1069 [physics/0509150] (2006) Uriel Frisch, Jeremie Bec, Erik Aurell, "Locally homogeneous turbulence" Is it an inconsistent framework? Physics of Fluids 17:081706 (2005) Alain Noullez, Sergey N. Gurbatov, Erik Aurell, Sergey I. Simdyankin, The global picture of self-similar and not self-similar decay in Burgers Turbulence Physical Review E71, 056305 (2005) Guglielmo Lacorata, Erik Aurell, Bernard Legras, Angelo Vulpiani, Evidence for a k**(-5/3) spectrum from the EOLE Lagrangian balloons in the low stratosphere Journal of the Atmospheric Sciences 61:2936-2942 (2004) Erik Aurell, Paolo Muratore-Ginanneschi, Growth-Optimal Strategies with Quadratic Friction Over Finite-Time Investment Horizons International J. of Theoretical and Applied Finance 7:645-657 (2004) Adam Ameur, Erik Aurell, Mats Carlsson, Jakub Orzechowski Westholm, Global gene expression analysis by combinatorial optimization In Silico Biology 4, 0020 (2004) |
Conference proceedings & book chapters |
| Nicolas Innocenti, Sebastian Koelling, Wilfried Vandervorst, Benoit Vanderheyden, Fsec Laser Solid Interactions on Nanoscale Semiconducting Objects and Their Impact on Imaging with 3D-atomic Resolution in the Atomprobe MRS Spring Meeting 2011 Erik Aurell, Duccio Fanelli, Sergey N. Gurbatov, A.Yu. Moshkov, The non-linear regime of the gravitational instability. The inner structure of the pancake Frontiers of Nonlinear Physics (2005) Supriya Krishnamurthy, Sameh El-Ansary, Erik Aurell, Seif Haridi, A statistical theory of Chord under Churn 4th International Workshop on Peer-to-Peer Systems (IPTPS 2005) cs.NI/0501069 Sameh El-Ansary, Erik Aurell, Seif Haridi, A Physics-inspired Performace Evaluation of a Structured Peer-to-Peer Overlay Network The International Conference on Parallel and Distributed Computing and Networks (PDCN 2005) Maria Werner, Numerical solution to the master equation using the linear noise approximation International Conference on Biological Physics (ICBP 2004) Daniel Hasselrot, Erik Aurell, Comparison of transcription factor binding site models using correlation with gene expression International Conference on Biological Physics (ICBP 2004) [abstracts] Erik Aurell, Uri Gordon, Scott Kirkpatrick, Comparing Beliefs, Surveys and Random Walks Eighteenth Annual Conference on Neural Information Processing Systems (NIPS 2004) [cond-mat/0406217] Sameh El-Ansary, Erik Aurell, Per Brand, Seif Haridi, Experience with a physics-style approach for the study of self properties in structured overlay networks Proceedings of SELF-STAR: International Workshop on Self-* Properties in Complex Information Systems (2004) Sameh El-Ansary, Erik Aurell, A physics-style approach to scaling in distributed systems LNCS Post-Proceedings of the Global Computing, Springer-Verlag (2004) |
Selected earlier publications |
2003 |
| M. Ehrenberg, J. Elf, E. Aurell, R. Sandberg and J. Tegner, Systems Biology is Taking Off Genome Research 13, 2377-2380 (2003) |
2002 |
| E. Aurell, S. Brown, J. Johansson and K. Sneppen, Stability puzzles in Phage lambda Physical Review E 65, 051914 (2002) E. Aurell and K. Sneppen, Epigenetics as a first exit problem Physical Review Letters 88, 048101 (2002) A. Kozlov, F. Ullen, P. Fagerstedt, E. Aurell, A. Lansner and S. Grillner, Mechanisms for lateral turns in lamprey in response to descending unilateral commands: a modeling study Biological Cybernetics 86, 1-14 (2002) |
2001 |
| A. Kozlov, E. Aurell, G.N. Orlovsky, T. Deliagina, P.V.
Zelenin, J. Hellgren-Kotaleski and S. Grillner, Modeling control of body orientation in the lamprey Biological Cybernetics 84, 323-330 (2001) |
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