This is a list of recent publications.
For a list of all publications, click here.

Articles

Fugelstad J., Bouzenzana J., Djerbi S., Guerriero G., Ezcurra I., Teeri T. T., Arvestad L. and Bulone V. (2009):

Identification of the cellulose synthase genes from the Oomycete Saprolegnia monoica and effect of cellulose synthesis inhibitors on gene expression and enzyme activity.

Fungal Genetics and Biology: 46, 759-767

Halnes G., Ulfhielm E., Eklöf Ljunggren E., Hellgren Kotaleski J. and Rospars J. (2009):

Modelling and sensitivity analysis of the reactions involving receptor, g-protein and effector in vertebrate olfactory receptor neurons.

J. Comput. Neurosci.: in press

Hasselmo M. E., Brandon M. P., Yoshida M., Giocomo L. M., Heys J. G., Franseén E., Newman E. L. and Zilli E. A. (2009):

A phase code for memory could arise from circuit mechanisms in entorhinal cortex.

Neural Networks: 22, 1129-1138

Hjorth J., Blackwell K. and Hellgren Kotaleski J. (2009):

Gap junctions between striatal fast-spiking interneurons regulate spiking activity and synchronization as a function of cortical activity.

J. Neurosci.: 29, 5276-86

Chiel H. J., Ting L. H., Ekeberg Ö. and Hartmann M. J. (2009):

The brain in its body: Motor control and sensing in a biomechanical context.

J. Neurosci.: 29, 12807-12814

Arvestad L., Lagergren J. and Sennblad B. (2009):

The gene evolution model and computing its associated probabilities.

Journal of the ACM: 56, 1-44

Åkerborg Ö., Sennblad B., Arvestad L. and Lagergren J. (2009):

Simultaneous bayesian gene tree reconstruction and reconciliation analysis.

Proc. Nat. Acad. Sci. USA: 106, 5714-5719

Baek S. K., Minnhagen P., Bernhardsson S., Choi K. and Kim B. J. (2009):

Flow improvement caused by agents who ignore traffic rules.

Phys. Rev. E: 80, 016111

Baek S. K., Minnhagen P. and Kim B. J. (2009):

Percolation in hyperbolic lattices.

Phys. Rev. E: 79, 011124

Baek S. K., Shima H. and Kim B. J. (2009):

Curvature-induced frustration in the $xy$ model on hyperbolic surfaces.

Phys. Rev. E: 79, 060106(R)

Baek S. K., Minnhagen P., Shima H. and Kim B. J. (2009):

Phase transition of $q$-state clock model on heptagonal lattices.

Phys. Rev. E: 80, 011133

Johansson C. and Lansner A. (2009):

Implementing plastic weights in neural networks using low precision arithmetic.

Neurocomputing: 72, 968-972

Sandström M., , Lansner A., Kotaleski J. H. and Rospars J.-P. (2009):

Modeling the response of a population of olfactory receptor neurons to an odourant.

J. Comput. Neurosci.: 27, 337-355

Sennblad B. and Lagergren J. (2009):

Probabilistic orthology analysis.

Systematic Biology, online

Werner M. and Aurell E. (2009):

A computational study of the lambda-lac mutants.

Physical Biology: 6, 046007

Lansner A. (2009):

Associative memory models: from cell assembly theory to biophysically detailed cortex simulations.

Trends Neurosci.: 32, 178-186

Kozlov A., Huss M., Lansner A., Hellgren Kotaleski J. and Grillner S. (2009):

Simple cellular and network control principles govern complex patterns of motor behavior.

PNAS: 106, 20027-20032

Roudi Y., Aurell E. and Hertz J. (2009):

Statistical physics of pairwise probability models.

Frontiers in Computational Neuroscience: 3

Pfitzner R. and Aurell E. (2009):

Gaussian belief with dynamic data and in dynamic network.

Europhysics Letters: 87, 68004

Grönlund A., Holme P. and Minnhagen P. (2008):

Dynamic scaling regimes of collective decision making.

Europhysics Letters: 81, 28003

Han S. and Kim B. J. (2008):

Network analysis of an online community.

Physica A: 387, 5946

Harischandra N. and Ekeberg Ö. (2008):

System identification of muscle-joint interactions of the cat hind limb during locomotion.

Biol. Cybern.: 99, 125-138

Djurfeldt M., Ekeberg Ö. and Lansner A. (2008):

Large-scale modeling-a tool for conquering the complexity of the brain.

Front. Neuroinform.: 2

Ardelius J. and Zdeborova L. (2008):

Exhaustive enumeration unveils clustering and freezing in the random 3-satisfiability problem.

Phys. Rev. E: 78, 040101

Alava M., Ardelius J., Aurell E., Kaski P., Krishnamurthy S., Orponen P. and Seitz S. (2008):

Circumspect descent prevails in solving random constraint satisfaction problems.

Proc. Nat. Acad. Sci. USA: 105, 15253-15257

Book contributions

Alava M., Aurell E. and Zhou H. (2009):

Five challenges on the statistical mechanics appraoch to constraint satisfaction problems [in chinese].

In: 10000 Selected Problems in Science. Beijing: Science Press (Chinese Academy of Sciences) , pages 422-427.

Fransén E. (2008):

Entorhinal cortex cells.

In: Hippocampal Microcircuits, (edited by Cutsuridis, Graham, Cobb and Vida).

Fransén E. (2008):

Mechanisms of graded persistent activity: Implications for epilepsy.

In: Computational Neuroscience in Epilepsy, (edited by Soltesz I. and Staley K.) Amsterdam: Elsevier.

Lansner A., Benjaminsson S. and Johansson C. (2008):

From ANN to biomimetic signal processing.

Studies in Computational Intelligence.

Johansson C. and Lansner A. (2006):

Attractor memory with self-organizing input.

In: LNCS. volume 3853 Springer Verlag , pages 265-280.

Lansner A. (2005):

Neural network models.

In: Encyclopedia of Nonlinear Science, (edited by Scott A.) New York: Routledge , pages 614-616.

Lansner A. (2005):

Cell assemblies.

In: Encyclopedia of Nonlinear Science, (edited by Scott A.) New York: Routledge , pages 103-105.

Conferences

Fransén E. A., Petersson M. E. and Yoshida M. (2009):

Mechanisms of mglur activated trp-current mediated potentials in entorhinal cortex neurons.

volume 35 , pages 323.15.

Hellgren Kotaleski J. (2009):

Modelling of motor systems including the dynamics in intracellular signaling networks involved in learning and synaptic plasticity.

British Neuroscience Association Meeting. Liverpool.

Evans R., Du K., Sheehan T., Hellgren Kotaleski J. and Blackwell K. (2009):

Effects of nmda receptor nr2 subunit on calcium concentration.

Soc. Neurosci. Abstr.. Society for Neuroscience Chicago October.

Sandström M., and Lansner A. (2009):

A bulb model implementing fuzzy coding of odour concentration.

Proc of 13th International Symposium on Olfaction and Electronic Nose (ISOEN '09). , pages 159-162.

Samuelsson E., Hill R. and Hellgren Kotaleski J. (2009):

Exploration of the lamprey pallidal neurons - a combined computational and experimental study.

CNS 2009. Berlin July.

Tigerholm J. and Fransén E. (2009):

Ka channels suppress cellular responses to fast ripple activity - implications for epilepsy.

volume 10 (Suppl 1) , pages P226.

Klaus A., Hjorth J. and Hellgren Kotaleski J. (2009):

The influence of stuttering properties for firing activity in pairs of electrically coupled striatal fast-spiking interneurons.

2nd INCF Congress of Neuroinformatics. Pilsen September.

Samuelsson E., Hill R. and Hellgren Kotaleski J. (2009):

The basal ganglia output stage in the lamprey - a combined experimental and modeling study.

2nd INCF Congress of Neuroinformatics. Pilsen September.

Petersson M. E. and Fransén E. (2009):

Trpc channels activated by group I mGluR in entorhinal pyramidal neurons support integration of low frequency (< 10 hz) synaptic inputs.

volume 10 (Suppl 1) , pages P26.

Klaus A., Hjorth J. and Hellgren Kotaleski J. (2009):

The influence of subthreshold membrane potential oscillations and gabaergic input on firing activity in striatal fast-spiking neurons.

CNS 2009. Berlin July.

Robertson B., Jones M., Samuelsson E., Hellgren Kotaleski J. and Grillner S. (2009):

The lamprey basal ganglia - a vertebrate blue-print.

Soc. Neurosci. Abstr.. Society for Neuroscience Chicago October.

Fransén E. and Hasselmo M. E. (2008):

Grid cell activity in rat medial entorhinal cortex may arise from persistent firing in layer V neurons interacting with layer II neurons.

volume 34 , pages 94.18.

Hjorth J., Hedlund L., Blackwell K. T. and Hellgren Kotaleski J. (2008):

Synchronization effects in networks of striatal fast spiking interneurons - role of gap junctions.

Proceedings of the International Conference on Cognitive Neurodynamics. ICCN2007.

Halnes G., Ulfhielm E., Hellgren Kotaleski J. and Rospars J.-P. (2008):

Modeling of the receptor, g-protein and effector reactions in vertebrate olfactory receptor neurons.

CNS 2008. Portland, Oregon July.

Hjorth J., Krieger P., Oliviera R., Blackwell K. and {Hellgren Kotaleski} J. (2008):

Gabaergic control of dendritic calcium dynamics in striatal medium spiny neurons.

1st INCF Congress of Neuroinformatics. Stockholm September.

Hjorth J., Blackwell K. T. and Hellgren Kotaleski J. (2008):

Gap junctions on striatal fast spiking interneurons reduce firing for non-correlated inputs.

Society for NeuroScience. Washington DC November.

Ritz R., Hellgren Kotaleski J., Strandberg P., Larsson A. a. L Y., Chatzopoulou E., Holm P., Naeslund M., Wang H. and Bjaalie J. (2008):

A new software center for the neuroinformatics community.

CNS 2008. Portland, Oregon July.

Hjorth J., Zilberter M., Oliviera R., Blackwell K. and {Hellgren Kotaleski} J. (2008):

Gabaergic control of backpropagating action potentials in striatal medium spiny neurons.

CNS 2008. Portland, Oregon July.

Krishnamurthy S., El-Ansary S., Aurell E. and Haridi S. (2008):

Comparing maintenance strategies for overlays.

In Proc. 16th Euromicro Conference on Parallel, Distributed and Network-Based Processing. volume PDP 2008 , pages 473-482.

Klaus A. and Hellgren Kotaleski J. (2008):

Synchronization effects between striatal fast-spiking interneurons forming networks with different topologies.

1st INCF Congress of Neuroinformatics. Stockholm September.

Technical Reports

Ekeberg Ö. and Djurfeldt M. (2008):

Music - multi-simulation coordinator: Request for comments.

Technical report International Neuroinformatics Coordinating Facility (INCF).

Djurfeldt M. and Lansner A. (2007):

Large-scale modeling of the nervous system.

Tech. rep. International Neuroinformatics Coordinating Facility (INCF).

Sandstrom M. (2007):

Early information processing in the vertebrate olfactory system - a computational study.

Licentiate degree thesis TRITA-CSC-A 2007:8 KTH, School of Computer Science and Communication Stockholm.

Djurfeldt M., Johansson C., Ekeberg Ö., Rehn M., Lundqvist M. and Lansner A. (2005):

Massively parallel simulation of brain-scale neuronal network models.

Technical Report TRITA-NA-P0513 KTH, School of Computer Science and Communication Stockholm.