Appendix 2: CV & publications - KTH

Publication List 2006–2011 of E. Aurell
According to the instructions, publications marked with “*” is a result of ACCESS collaboration (ACCESS
Faculty or Postdoc).
A. Peer-reviewed articles
[EA-1] Erik Aurell, Carlos Mejia-Monasterio, Paolo Muratore-Ginanneschi, Optimal protocols and optimal
transport in stochastic thermodynamics Phys. Rev. Lett. 106, 250601 (2011)
[EA-2] Erik Aurell, Hamed Mahmoudi Three Lemmas on Dynamic Cavity Method Communications in
Theoretical Physics (July 2011), 56 (1), pg. 157-162 *
[EA-3] Erik Aurell, Hamed Mahmoudi, A message-passing scheme for non-equilibrium stationary states
JSTAT 0007P111 (2011) *
[EA-4] Hong-Li Zeng, Erik Aurell, Mikko Alava, Hamed Mahmoudi, Network inference using asynchronously
updated kinetic Ising model Phys. Rev. E 83, 041135 (2011) *
[EA-5] Anita Göndör, Alejandro Fernandez Woodbridge, Chenxi Shi, Erik Aurell, Marta Imreh, Rolf
Ohlsson. Window into the Complexities of Chromosome Interactomes, Cold Spring Harbour Symposia
on Quantitative Biology (2011). doi: 10.1101/sqb.2010.75.049
[EA-6] Aymeric Fouquier d’Hérouël, Françoise Wessner, David Halpern, Joseph Ly-Vu, Sean Kennedy,
Pascale Serror, E rik 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)
[EA-7] Erik Aurell, Charles Ollion, Yasser Roudi. Dynamics and performance of susceptibility propagation
on synthetic data. European Journal of Physics B. 10.1140/epjb/e2010-00277-0 (2010).
[EA-8] Maria Werner, Erik Aurell. A computational study of the lambda-lac mutants. Phys. Biol. 6 046007
(2009).
[EA-9] Yasser Roudi, Erik Aurell, John Hertz. Statistical physics of pairwise probability models. Front.
Comput. Neurosci. 3 22 (2009).
[EA-10] Erik Aurell, René Pfitzner. Gaussian Belief with dynamic data and in dynamic network. Europhys.
Lett. 87 68004 (2009).
[EA-11] Mikko Alava, John Ardelius, Erik Aurell, Petteri Kaski, Supriya Krishnamurthy, Pekka Orponen,
and Sakari Seitz. Circumspect descent prevails in solv ing random constraint satisfaction problems.
Proc. Nat. Acad. Sci. USA, 105:15253-15257, (2008).
[EA-12] Supriya Krishnamurthy, Sameh El-Ansary, Erik Aurell, Seif Haridi. An Analytical Study of a
Structured Overlay in the presence of Dynamic Membership, IEEE/ACM Transactions on Networking,
16:814-825, (2008).
[EA-13] Maria Werner, LiZhe Zhu, Erik Aurell. Cooperative action in eukaryotic gene regulation: Physical
properties of a viral example Phys. Rev. E 76, 061909 (2007).
[EA-14] 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).
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