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Seminal BAMBI publications

Books

[Bessière et al., 2013] Bessière, P., Mazer, E., Ahuactzin, J.-M., and Mekhnacha, K. (2013). Bayesian Programming. Chapman and Hall/CRC.

[Bessière et al., 2013] Bessière, P., Mazer, E., Ahuactzin, J.-M., and Mekhnacha, K. (2013). Bayesian Programming. Chapman and Hall/CRC.

[Levine, 2005] Levine, R. D. (2005). Molecular Reaction Dyamics. Cambridge University Press.

[Levine, 2005] Levine, R. D. (2005). Molecular Reaction Dyamics. Cambridge University Press.

[Ferreira and Dias, 2013] Ferreira, J. and Dias, J. (2013). Probabilistic Approaches to Robotic Perception. Spinger.

[Ferreira and Dias, 2013] Ferreira, J. and Dias, J. (2013). Probabilistic Approaches to Robotic Perception. Spinger.

[Bessière et al., 2008] Bessière, P., Laugier, C., and Siegwart, R. (2008). Probabilistic Reasoning and Decision Making in Sensory-Motor Systems. Springer.

[Bessière et al., 2008] Bessière, P., Laugier, C., and Siegwart, R. (2008). Probabilistic Reasoning and Decision Making in Sensory-Motor Systems. Springer.

Journal Papers

2013

  • [Wei et al., 2013] Wei, W., Shi, Q., Remacle, F., Qin, L., Shackelford, D. B., Shin, Y. S., Mischel, P. S., Levine, R. D., and Heath, J. R. (2013). Hypoxia induces a phase transition within a kinase signaling network in cancer cells. Proc Natl Acad Sci U S A, 110(15):E1352–60.

2012

  • [Ferreira et al., 2012] Ferreira, J., Lobo, J., Bessière, P., Castelo-Branco, M., and Dias, J. (2012). A bayesian framework for active artificial perception. IEEE Transactions on Systems, IEEE Transactions on Systems, Man, and Cybernetics, Part B, 99:1–13.
  • [Ferreira et al., 2012] Ferreira, J. F., Castelo-Branco, M., and Dias, J. (2012). A hierarchical bayesian framework for multimodal active perception. Adaptive Behavior, 20(3):172–190.
  • [Kravchenko-Balasha et al., 2012] Kravchenko-Balasha, N., Levitzki, A., Goldstein, A., Rotter, V., Gross, A., Remacle, F., and Levine, R. D. (2012). On a fundamental structure of gene networks in living cells. Proceedings of the National Academy of Sciences, 109(12):4702–4707.
  • [Salinas et al., 2012] Salinas, T., Duby, F., Larosa, V., Coosemans, N., Bonnefoy, N., Motte, P., Marechal- Drouard, L., and Remacle, C. (2012). Co-evolution of mitochondrial trna import and codon usage deter- mines translational efficiency in the green alga chlamydomonas. PLoS Genet, 8(9):e1002946.

2011

  • [Ferreira et al., 2011] Ferreira, J. a. F., Lobo, J., and Dias, J. (2011). Bayesian real-time perception algo- rithms on gpu. J. Real-Time Image Process., 6(3):171–186.
  • [Remacle et al., 2011] Remacle, F., Graeber, T., and Levine, R. D. (2011). Whose entropy: A maximal entropy analysis of phosphorylation signaling. Journal of statistical physics, 144(2):429–442.
  • [Mol et al., 2011] Mol, J. A., Verduijn, J., Levine, R. D., Remacle, F., and Rogge, S. (2011). Integrated logic circuits using single-atom transistors. Proceedings of the National Academy of Sciences, 108(34):13969– 13972.
  • [Chanthbouala et al., 2011] Chanthbouala, A., Matsumoto, R., Grollier, J., Cros, V., Anane, A., Fert, A., Khvalkovskiy, A. V., Zvezdin, K. A., Nishimura, K., Nagamine, Y., Maehara, H., Tsunekawa, K., Fukushima, A., and Yuasa, S. (2011). Vertical-current-induced domain-wall motion in mgo-based mag- netic tunnel junctions with low current densities. Nat Phys, 7(8):626–630.

2010

  • [Graeber et al., 2010] Graeber, T. G., Heath, J. R., Skaggs, B. J., Phelps, M. E., Remacle, F., and Levine, R. D. (2010). Maximal entropy inference of oncogenicity from phosphorylation signaling. Proceedings of the National Academy of Sciences, 107(13):6112–6117.
  • [Colas et al., 2010] Colas, F., Diard, J., and Bessière, P. (2010). Common bayesian models for common cognitive issues. Acta Biotheoretica, 58(2-3):191–216.
  • [Houillon et al., 2010] Houillon, A., Bessière, P., and Droulez, J. (2010). The probabilistic cell: implementa- tion of a probabilistic inference by the biochemical mechanisms of phototransduction. Acta Biotheoretica, 58(2-3):103–120.
  • [Wang et al., 2010] Wang, Z.-G., Elbaz, J., Remacle, F., Levine, R. D., and Willner, I. (2010). All-dna finite- state automata with finite memory. Proceedings of the National Academy of Sciences, 107(51):21996–22001.

2008

  • [Colas et al., 2008] Colas, F., Droulez, J., Wexler, M., and Bessière, P. (2008). A unified probabilistic model of the perception of three-dimensional structure from optic flow. Biological Cybernetics, pages 132–154.
  • [Jans et al., 2008] Jans, F., Mignolet, E., Houyoux, P.-A., Cardol, P., Ghysels, B., Cuin ́e, S., Cournac, L., Peltier, G., Remacle, C., and Franck, F. (2008). A type ii nad(p)h dehydrogenase mediates light- independent plastoquinone reduction in the chloroplast of chlamydomonas. Proceedings of the National Academy of Sciences, 105(51):20546–20551.

2007

  • [Mekhnacha et al., 2007] Mekhnacha, K., Ahuactzin, J.-M., Bessière, P., Mazer, E., and Smail, L. (2007). Exact and approximate inference in ProBT. Revue d’Intelligence Artificielle, 21/3:295–332.
  • [Remacle and Levine, 2007] Remacle, F. and Levine, R. D. (2007). Towards parallel computing: Represen- tation of a linear finite state digital logic machine by a molecular relaxation process. Eur. Phys. J. D, 42(1):49–59.
  • [Laurens and Droulez, 2007] Laurens, J. and Droulez, J. (2007). Bayesian processing of vestibular informa- tion. Biological Cybernetics, 96:389–404.

2006

  • [Remacle et al., 2006] Remacle, C., Cardol, P., Coosemans, N., Gaisne, M., and Bonnefoy, N. (2006). High- efficiency biolistic transformation of chlamydomonas mitochondria can be used to insert mutations in complex i genes. Proc Natl Acad Sci U S A, 103(12):4771–4776.
  • [Coué et al., 2006] Coué, C., Pradalier, C., Laugier, C., Fraichard, T., and Bessière, P. (2006). Bayesian Occupancy Filtering for Multitarget Tracking: an Automotive Application. International Journal of Robotics Research, 25(1):19–30.

2005

  • [Cardol et al., 2005] Cardol, P., Gonzalez-Halphen, D., Reyes-Prieto, A., Baurain, D., Matagne, R. F., and Remacle, C. (2005). The mitochondrial oxidative phosphorylation proteome of chlamydomonas reinhardtii deduced from the genome sequencing project. Plant Physiol, 137(2):447–459.

2001

  • [Remacle et al., 2001] Remacle, F., Speiser, S., and Levine, R. D. (2001). Intermolecular and intramolecular logic gates. The Journal of Physical Chemistry B, 105(24):5589–5591.