The Neural Coding and Bayesian Methods Journal Club.

The Neural Coding and Bayesian Methods Journal Club is a discussion group with meetings held weekly. The group focuses on neural coding, Bayesian and information theoretic approaches to neuroscience problems, attention, and perceptual learning. Meetings are organised by Peggy Series, and are generally held on Mondays at 5pm in room 1.16 in the Informatics Forum unless noted otherwise.

Autumn/Winter 2010

Previous Meetings

• 1st March Vincent Valton
• 22nd Feb 2010 Grigorios Sotiropoulos
• 15th Feb 2010 Hannes Saal
• 8th Feb 2010 Peggy Series
• 1st Feb 2010 Matty Chalk: "Noise characteristics and prior expectations in human visual speed perception", A. A. Stocker and E. P. Simoncelli, Nature Neuroscience 2006 vol. 9 (4) pp. 578-85, http://www.nature.com/neuro/journal/v9/n4/abs/nn1669.html
• 25th Jan 2010 David Reichert: "The different stages of visual recognition need different attentional binding strategies", Tsotsos et al., Brain Research, 2008 http://www.sciencedirect.com/science/article/B6SYR-4SK62YX-3/2/2a24b2dd794c91ff8a41c863d67fc24f
• 11th Jan 2010 Matteo Columbo: Ray D, King-Casas B, Montague, PR & Dayan P (2008). Bayesian model of behaviour in economic games. NIPS 2008.: http://www.gatsby.ucl.ac.uk/~dayan/papers/raynips09.pdf
• 14th Dec 2009 David Acunzo:Bompas et al. Naso-temporal asymmetry for signals invisible to the retinotectal pathway. Journal of Neuropsychology (2008) vol. 100 pp. 412-421 http://jn.physiology.org/cgi/content/abstract/90312.2008v2

• 7th Dec 2009 Vincent Valton: P.R. Corlett, C.D. Frith, P.C. Fletcher: " From drugs to deprivation: a bayesian framework for understanding models of psychosis " Psychopharmacology (2009) 206:515-530 http://www.springerlink.com/content/b1175203r6n14651
• 30 Nov 2009: no journal club
• 23 Nov 2009 Grigorios Sotiropoulos: Freeman E, Sagi D, Driver J: Lateral interactions between targets and flankers in low-level vision depend on attention to the flankers. Nat Neurosci. 4(10):1032-6, 2001.
• 16 Nov 2009 Hannes Saal: http://www.ncbi.nlm.nih.gov/pubmed/15772663, Nature. 2005, Mar 17;434(7031):387-91. Najemnik J, Geisler WS
• 9 Nov 2009 Matthew Chalk: http://www.nature.com/neuro/journal/v4/n8/abs/nn0801_819.html, Nat Neurosci (2002) vol. 4 (8) pp. 819-25, Schwartz and Simoncelli
• 2 Nov 2009 Graeme Phillipson: http://www.nature.com/neuro/journal/v11/n8/abs/nn.2147.html, Nat Neurosci (2008) vol. 11 (8) pp. 974-98, Chen et al.
• 26 Oct 2009 Peggy Series: http://www.gatsby.ucl.ac.uk/~dayan/papers/huysnips09.pdf, NIPS, 2008, Huys QJM, Vogelstein J & Dayan P
• http://www.gatsby.ucl.ac.uk/~qhuys/pub/hd09.pdf, Cognition, 2009, Quentin Huys and Peter Dayan
• 19 Oct 2009 David Acunzo: http://www.ncbi.nlm.nih.gov/pubmed/16487729, NeuroImage , 2006, 31(2):920-33
• 12 Oct 2009 David Reichert: "Beyond V1... Here Be Objects!". I would like to discuss some background motivation for what I'm trying to do in my PhD, and in a sense it's related to Jim's talk on Tuesday, hence the title. I'm going to give a rather broad presentation, but to get an idea I suggest reading the following paper (only 2 pages!): http://www.cell.com/current-biology/retrieve/pii/S0960982209006824 Current Biology, 2009, 19(7);300-2
• 5 Oct 2009 Matteo Colombo: http://www.ncbi.nlm.nih.gov/pubmed/19559644, Trends in Cog. Sci. 2009, 13(7):293-301
• Break for the Summer Term.

• 30 March 2009 David Acunzo: Reynolds JH, Heeger DJ. The normalization model of attention. Neuron. 2009 Jan 29;61(2):168-85.

• 16 March 2009 David Reichert: Stephen Waydo, Christof Koch: Unsupervised Learning of Individuals and Categories from Images. Neural Computation 2008

• 9 March 2009 Konrad Rawlik: Dayan P. Load and Attentional Bayes. NIPS 2008

• 2 March 2009 Hannes Saal: Karklin Y, Lewicki MS. Emergence of complex cell properties by learning to generalize in natural scenes. Nature. 2009 Jan 1;457(7225):83-6. Epub 2008 Nov 19.

• 16 February 2009 Peggy Series: Dayan P, Huys QJ. Serotonin, inhibition, and negative mood. Plos Comput Biol. 2008 Feb;4(2):e4.

• 9 February 09 Hugh Pastoll: Schäfer R, Vasilaki E, Senn W. Perceptual Learning via Modification of Cortical Top-Down Signals. Plos Comput Biol. 2007 Aug;3(8):e165.

• 2 February 09 Matthew Chalk: Jaramillo S and Pearlmutter BA. Optimal coding predicts attentional modulation of activity in neural systems. Neural computation (2007) vol. 19 (5) pp. 1295-312.

• 26 January 09 David Acunzo Schupp et al. Selective Visual Attention to Emotion. Journal of Neuroscience. 2007. 27(5):1082-1089

• 19 January 09 David Reichert Patrick Cavanagh and George A. Alvarez. Tracking multiple targets with multifocal attention Trends in Cognitive Sciences, Volume 9, Issue 7, July 2005, Pages 349-354

• 12 January 09 Konrad Rawlik Dorion B. Liston and Leland S. Stone. Effects of Prior Information and Reward on Oculomotor and Perceptual Choices. The Journal of Neuroscience, December 17, 2008, 28(51):13866-13875.

• 8 December 08 Peggy Series: Yang T, Shadlen MN. Probabilistic reasoning by neurons. Nature 447(7148):1075-80, 2007.

• 1 December 08 Graeme Phillipson: Preston TJ, Li S, Kourtzi Z, Welchman AE. Multivoxel pattern selectivity for perceptually relevant binocular disparities in the human brain. J Neurosci. 28(44):11315-27, 2008.

• 24 November 08 Hannes Saal: Machens CK, Gollisch T, Kolesnikova O, Herz AV. Testing the efficiency of sensory coding with optimal stimulus ensembles. Neuron 47(3):447-56, 2005.

• 10 November 08 Matteo Colombo: Rangel A, Camerer C, Montague PR. A framework for studying the neurobiology of value-based decision making. Nature Reviews Neuroscience 9:545-556, 2008.

• 3 November 08 Hugh Pastoll will present his summer project.

• 27 October 08 Matthew Chalk will present his summer project.

• 20 October 08 Peggy Series: Beck J, Ma WJ, Kiani R, Hanks T, Churchland AK, Roitman J, Shadlen MN, Latham PE and Pouget A. Probabilistic population codes for Bayesian decision making. Neuron. In press.

• 13 October 08 David Acunzo: Johnson JS, Olshausen BA. Timecourse of neural signatures of object recognition. Journal of Vision, 3, pp. 499-512, 2003.

• 6 October 08 Konrad Rawlik: Iori Ito, Rose Chik-ying Ong, Baranidharan Raman & Mark Stopfer. Sparse odor representation and olfactory learning. Nature Neuroscience 11, 1177 - 1184 (2008).

• 22 September 08 Hannes Saal: Gollisch and Meister. Rapid neural coding in the retina with relative spike latencies. Science (2008) vol. 319 (5866) pp. 1108-11

• 15 September 08 David Reichert: Murray SO, Schrater P, Kersten D. Perceptual grouping and the interactions between visual cortical areas. Neural Netw. 2004 Jun-Jul;17(5-6):695-705.

• 8 September 08 Graeme Phillipson: Rory Sayres and Kalanit Grill-Spector. Relating Retinotopic and Object-Selective Responses in Human Lateral Occipital Cortex. J Neurophysiol 100: 249-267, 2008.

• 18 August 08 Matthew Chalk: Belitski A, Gretton A, Magri C, Murayama Y, Montemurro MA, Logothetis NK, Panzeri S. Low-frequency local field potentials and spikes in primary visual cortex convey independent visual information. J Neurosci. 2008 May 28;28(22):5696-709. Matty will also talk about his current research and how this paper relates with it.

• 4 August 08 Nicolas Heess: Pillow JW, Shlens J, Paninski L, Sher A, Litke AM, Chichilnisky EJ , Simoncelli EP. Spatio-temporal correlations and visual signalling in a complete neuronal population. Nature, 2008

• 21 July 08 Konrad Rawlik: Denève S, Duhamel JR, Pouget A. Optimal sensorimotor integration in recurrent cortical networks: a neural implementation of Kalman filters., J Neurosci. 2007 May 23;27(21):5744-56

• 28 July 08 David Acunzo: J. Storbeck et al. (2006) Semantic Processing Precedes Affect Retrieval: The Neurological Case for Cognitive Primacy in Visual Processing. Review of General Psychology, 10(1), pp. 41-55

• 7 July 08 Peggy Series: Fisher information, its relation to Shannon information, and where it fails; based on the following papers: Brunel N, Nadal JP. Mutual information, Fisher information, and population coding. Neural Comput. 1998 Oct 1;10(7):1731-57. and Bethge M, Rotermund D, Pawelzik K. Optimal short-term population coding: when Fisher information fails. Neural Comput. 2002 Oct;14(10):2317-51.

• 30 June 08 Hugh Pastoll, Ardid, A., Wang, X. and Compte, A. 2007. An Integrated Microcircuit Model of Attentional Processing in the Neocortex. J Neurosci. 2007 Aug 8;27(32):8486-95.

• 16 June 08 Matthew Chalk: Huang, X. Albright, T. D. Stoner, G. R. Adaptive Surround Modulation in Cortical Area MT., Neuron, Vol 53. pg 761-770, 2007.

• 9 June 08 David Reichert: Laurent G: Olfactory network dynamics and the coding of multidimensional signals, Nature Reviews Neuroscience 3, 884-895 (November 2002)

• 2 June 08 Graeme Phillipson: Wu Li and Valentin Piëch and Charles D Gilbert: Perceptual learning and top-down influences in primary visual cortex. Nat Neurosci 7(6): 651--657, 2004.

• 19 May 08 Hannes Saal: Dean, Harper, McAlpine: Neural population coding of sound level adapts to stimulus statistics, Nat Neurosci, 2005

• 12 May 08 Peggy Series: Yu & Dayan: Uncertainty, neuromodulation, and attention. Neuron. 2005 May 19;46(4):681-92.

• 5 May 08 Nicolas Heess Gutinsky, Dragoi: Adaptive coding of visual information in neural populations, Nature 2008

• 21 Feb 08 Stephan Bisky: Paulin MG: Evolution of the cerebellum as a neuronal machine for Bayesian state estimation, J Neural Eng. 2005 Sep;2(3):S219-34.

• 7 Feb 08 David Reichert: Computational Models for Generic Cortical Microcircuits by Wolfgang Maass, Thomas Natschläger, Henry Markram. Different venue: c23 Forrest Hill.

• 17 Jan 08 Nicolas Heess: Markov Chain Monte Carlo with People by Adam N. Sanborn, Thomas L. Griffiths and A neural network implementing optimal state estimation based on dynamic spike train decoding by Omer Bobrowski1, Ron Meir, Shy Shoham and Yonina C. Eldar.

• 26 Nov 07 Peggy Series: Jazayeri and Movshon, ' A new perceptual illusion reveals mechanisms of sensory decoding', Nature (2007) as well as a NIPS paper (preprint) of Alan Stocker and Eero Simoncelli which suggests an alternative (and Bayesian) explanation for this illusion.

• 5 Nov 07 Nicolas Heess: Temporal precision in the neural code and the time scales of natural vision' by Butts et al, Nature (2007)

• 22 Oct 07 Hannes Saal: the tempotron: a neuron that learns spike-timing based decisions' by Gutig and Somplinsky, Nature Neuroscience (2006)

Suggested papers

• Wimmer K, Hildebrandt KJ, Hennig RM, Obermayer K. Adaptation and selective information transmission in the cricket auditory neuron AN2. PLoS Comput Biol. 2008 Sep 26;4(9):e1000182.

• Herrero JL, Roberts MJ, Delicato LS, Gieselmann MA, Dayan P, Thiele A: Acetylcholine contributes through muscarinic receptors to attentional modulation in V1 Nature. 2008 Jul 16. [Epub ahead of print].

• Cohen MR, Newsome, WT. Context-Dependent Changes in Functional Circuitry in Visual Area MT. Neuron, Vol 60, 162-173, 09 October 2008,