Developmental Computational Neuroscience Group (DevCompNeuro)

The DevCompNeuro group is usually held Tuesdays at 14.00 in room 4.02, Informatics Forum. Meetings are either a discussion of a recent paper (chosen by that week's presenter) or a presentation of someone's current work.

Current Schedule

• Next Week David Sterratt
• The Week After Michael Hull

Upcoming Speaker Rota

• Jim Bednar
• Xavier Oliver Duocastella
• Chris Ball
• David Willshaw
• Matthias Hennig
• Adrianna Teriakidis
• Matthew Down
• Roger Zhao
• David Sterratt
• Michael Hull

Potentially interesting papers to discuss

• Synaptic Activity and Activity-Dependent Competition Regulates Axon Arbor
  Maturation, Growth Arrest, and Territory in the Retinotectal Projection
  Naila Ben Fredj, Sarah Hammond, Hideo Otsuna, Chi-Bin Chien, Juan Burrone,
  and Martin P. Meyer
  J. Neurosci. 2010;30 10939-10951
  [[http://www.jneurosci.org/cgi/content/abstract/30/32/10939?etoc]]
  
  
• Ksenia V. Kastanenka and Lynn T. Landmesser (2010) In Vivo Activation of Channelrhodopsin-2 Reveals That
  Normal Patterns of Spontaneous Activity Are Required for Motoneuron Guidance and Maintenance of Guidance
  Molecules. J. Neurosci. 30(31):10575-10585 http://www.jneurosci.org/cgi/content/full/30/31/10575
• Stacy & al (2005) "Disruption of Patterned Retinal Activity in the absense of acetylcholine". J. Neurosci. 25:9347-9357
• "Sperry versus Hebb: Topographic mapping in Isl2/EphA3 mutant mice" Dmitry Tsigankov, Alexei Koulakov (13 Feb 2008) PDF from arXiv

• "A unifying model for activity-dependent and activity-independent mechanisms predicts complete structure of topographic maps in ephrin-A deficient mice" Dmitry Tsigankov, Alexei Koulakov Journal of Computational Neuroscience, Vol. 21, No. 1. (2006), pp. 101-114. Link

• Kenneth D Harris (2008) "Stability of the fittest: organizing learning with retroaxonal signals", TINS 31:130-136. http://andromeda.rutgers.edu/~kdharris/backprop.pdf
• Zou et al (2009) "How the olfactory bulb got its glomeruli: a just so story?", Nat Rev Nsci 10:611 http://dx.doi.org/10.1038/nrn2670
• Yu, S. R. et al. (2009) Fgf8 morphogen gradient forms by a source-sink mechanism with freely diffusing molecules. Nature 461, 533-536 . URL http://dx.doi.org/10.1038/nature08391.

• NETMORPH: A Framework for the Stochastic Generation of Large Scale Neuronal Networks With Realistic Neuron Morphologies http://www.springerlink.com/content/b17m2162m5j78w06/?p=bc0c5037bc8b49b1aa14fd9e6e6e14c7\x{03c0}=0

Past Schedule

• 25 May 10 Roger Zhao Newborn infants learn during sleep http://www.pnas.org/content/early/2010/05/11/1005061107.abstract
• 18 Apr 10 Mattias Hennig
• 12 Apr 10 David Willshaw 'Pretarget sorting of retinocollicular axons on the mouse'
• 6 Apr 10 No Meeting
• 30 Mar 10 DevComp Quiz
• 16 Mar 10 Xavier "PHOX2A regulation of oculomotor complex nucleogenesis" http://www.ncbi.nlm.nih.gov/pubmed/20215354
• 09 Mar 10 Mike Hull "Xenopus Tadpole Spinal cord: function and connections"
• 16 Feb 10 Feedback from DevCompCambridge
• 09 Feb 10 Cancelled due to DevCompCambridge
• 02 Feb 10 axon guidance at the midline: of mice and flies http://www.ncbi.nlm.nih.gov/pubmed/20074930
• 26 Jan 10 Bayesian image recovery for dendritic structures under low signal-to-noise conditions Geoff Fudenberg and Liam Paninski
  http://www.stat.columbia.edu/~liam/research/abstracts/fudenberg-revised-ieeetip.html
• 19 Jan 10 Matthias Hennig - Spatial-Temporal Patterns of Retinal Waves Underlying Activity-Dependent Refinement of Retinofugal Projections Stafford et al
  Neuron Volume 64, Issue 2
  http://dx.doi.org/10.1016/j.neuron.2009.09.021
• 12 Jan 10 David Willshaw - Knockins and knockout maps: how to process the data in lots of different and confusing ways.
• 01 Dec 09 Chris Ball - "Gene therapy for red-green colour blindness in adult primates" Nature 461, 784-787 (8 October 2009) http://www.nature.com/nature/journal/v461/n7265/full/nature08401.html
• 24 Nov 09 Jude Law - "Retinotopic organization of mouse V1 based on receptive fields computed from natural image stimuli"
• 17 Nov 09 SfN feedback
• 10 Nov 09 Matt - 'A framework for modeling the growth and development of neurons and networks ' http://www.frontiersin.org/computationalneuroscience/paper/10.3389/neuro.10/025.2009/
• 03 Nov 09 Cancelled
• 27 Oct 09 Rui Costa - Axon guidance simulator masters project
• 20 Oct 09 Cancelled
• 13 Oct 09 Jim
• 06 Oct 09 David S. - Gradients and retinotectal mapping Pt. 2
• 29 Sep 09 David S. - Gradients and retinotectal mapping
• 22 Sep 09 Jan - Predicting stimuli from activity (joint with PIGs)
• 15 Sep 09 Roger
• 08 Sep 09 Canceled
• 01 Sep 09 Jan "Surround modulation in V1"
• 25 Aug 09 Canceled

• 18 Aug 09 Matthew Down "Slits contribute to the guidance of retinal ganglion cell axons in the mammalian optic tract" http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WDG-4K60513-5&_user=809099&_rdoc=1&_fmt=&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000043939&_version=1&_urlVersion=0&_userid=809099&md5=a59db2e4866eeb1ec3d957a407ec8658

• 11 Aug 09 Adrianna + Jude

• 28 July 09 Matthias. "Retinal waves are (un)likely to instruct the formation of eye-specific
  retinogeniculate projections" ( by Marla Feller, http://www.neuraldevelopment.com/content/4/1/24 & by Leo Chalupa, http://www.neuraldevelopment.com/content/4/1/25)
• 23 June 09 David W. Topographic map analysis in knockout mice.
• 16 June 09 Matthias: Homeostasis in Neurons & Chris B.: Development of colour vision.

• 09 June 09 Special Guest: Catherina Becker (http://www.cnr.ed.ac.uk/Research/becker.html)

• 02 June 09 Special Guest: Tom Pratt (http://www.cip.ed.ac.uk/members/HRB/pratt/index.htm)

• 26 May 09 Jude: Constraints on cortical organisation

• 19 May 09 CANCELED University Holiday

• 12 May 09 CANCELED for ANC Review Day

• 05 May 09 David S., David W., Matthias: Development conference update

• 21 April 09 Xavier: The internal capsule, humans and mice (with reference to: "Two-dimensional population map of cortical connections in the human internal capsule*"Zarei et al.Journal of Magnetic Resonance Imaging 25:48-54. 2007 http://www3.interscience.wiley.com/journal/113508458/abstract?CRETRY=1&SRETRY=0 )

• 07 April 09 David W.: How to write a grant.

• 31 March 09 David S.: "How much information do retinal and tectal molecular gradients provide during the development of retinotectal mappings"?

• 24 March 09 Jan: Armen Stepanyants, Luis M. Martinezb, Alex S. Ferecskóc, and Zoltán F. Kisvárdaye. (2009) The fractions of short- and long-range connections in the visual cortex. http://www.pnas.org/content/106/9/3555.short

• 17 March 09 Jan: Randy M. Bruno,Thomas T. G. Hahn, Damian J. Wallace, Christiaan P. J. de Kock,and Bert Sakmann. (2009) Sensory Experience Alters Specific Branches of Individual Corticocortical Axons during Development

• 10 March 09 Roger: Miyawaki et. al. Visual Image Reconstruction from Human Brain Activity using a Combination of Multiscale Local Image Decoders. Neuron (2008) vol. 60 (5) pp. 915-29.

• 03 March 09 Adrianna: The Interscutularis Muscle Connectome. Ju Lu, Juan Carlos Tapia, Olivia L. White, Jeff W. Lichtman PLoS Biol 7(2) doi:10.1371/journal.pbio.1000032

• 24 February 09 Sim: topographic maps on a chip (PhD work)

• 17 February 09 Jim: Monier, Fregnac, et al., Neuron 2003 37:663--680, "Orientation and Direction Selectivity of Synaptic Inputs: A Diversity of Combinations Produces Spike Tuning". http://dx.doi.org/10.1016/S0896-6273(03)00064-3

• 10 February 09 Matthias: Modeling Topographic Map formation

• 03 February 09 Guest: Marcus Kaiser

• 27 January 09 Matt Down: Jaeger J., Irons D. & Monk N. (2008). 'Regulative feedback in pattern formation: towards a general relativistic theory of positional information'. Development 135:3175-3183. http://dev.biologists.org/cgi/reprint/135/19/3175

• 20 January 09 Adrianna Teriakidis: Increasing resolution by thin sectioning. (Work I did in Lichtman Lab).

• 13 January 09 General Discussion: Abbott (2008) Theoretical Neuroscience Rising.

• 16 December 08 Judith Law: Nauhaus et al. (2008) Stimulus contrast modulates functional connectivity in visual cortex

• 9 December 08 Xavier Oliver Duocastella: Axons, 3D navigation, lots of gradients and the thalamocortical system. A plan for that.

• 2 December 08 Chris Palmer: Lu et al. (2008) Functional organization of color domains in V1 and V2 of macaque monkey revealed by optical imaging

• 25 November 08 Keith Godfrey: Model of retinal waves

• 18 November 08 David Willshaw: Review of papers on the development of specific nerve connections, going back as far as possible.

• 11 November 08 David Sterratt: Cang, Wang, Stryker & Feldheim (2008) "Roles of ephrin-as and structured activity in the development of functional maps in the superior colliculus" Journal of Neuroscience, Vol. 28, No. 43. pp. 11015-11023. http://dx.doi.org/10.1523/JNEUROSCI.2478-08.2008

• 4 November 08 Roger Zhao: Yoichi Sugita (2008) "Face perception in monkeys reared with no exposure to faces", PNAS 105:394-398, http://dx.doi.org/10.1073/pnas.0706079105

• 28 October 2008 Jan Antolik: "Developing maps of complex cells in a computational model of V1", practice talk for SfN .

• 14 October 2008 David Sterratt: RD Shah, MC Crair (2008) "Retinocollicular synapse maturation and plasticity are regulated by correlated retinal waves", Journal of Neuroscience, Vol. 28, pp. 292-303. http://dx.doi.org/10.1523/JNEUROSCI.4276-07.2008

• 7 October 2008 Matthias Hennig: Sun et al. (2008) "Retinal waves in mice lacking the beta2 subunit of the nicotinic acetylcholine receptor", PNAS. http://www.pnas.org/content/105/36/13638.full

• 30 September 2008 General discussion

• 23 September 2008 Jan Antolik: "Modelling interaction between development and contrast gain control in V1"

• 23 September 2008 John Davey: "Bioinformatics approaches to the genetic basis of shell chirality in snails"

• 15 September 2008 Matthew Down: "Axon pathfinding at the developing mouse optic chiasm" and "A semi-statistical method of axon tracing using Gabor Patches"

• 9 September 2008 John Davey: "Model of dendrite growth in barrel cortex" (with Peter Kind).

• 2 September 2008 Judith Law: "A cat and mouse game"

• 26 August 2008 Kateryna Gerasymova: "Modelling development of all known visual maps in V1", MSc project.

• 26 August 2008 Sim Bamford: "Synaptic rewiring for topographic map formation", practice talk for ICANN.

• 12 August 2008 David Sterratt: Ross J. Metzger, Ophir D. Klein, Gail R. Martin & Mark A. Krasnow (2008), "The branching programme of mouse lung development", Nature 453, 745-750. http://www.nature.com/nature/journal/v453/n7196/abs/nature07005.html

• 5 August 2008 Adrianna Teriakidis: Zhang, Zhou, Lu, Lichtman, Adjeroh, and Wong (2008), "3D Axon structure extraction and analysis in confocal fluorescence microscopy images", Neural Comput. 20(8):1899-927. http://carlin.lib.ed.ac.uk:2065/eAccess/viewAbstract.do?articleID=37191769

• 29 July 2008 Matthias Hennig: Nishiyama et al. (2008) "Membrane potential shifts caused by diffusible guidance signals direct growth-cone turning", Nature Neuroscience 11, 762 - 771. http://www.nature.com/neuro/journal/v11/n7/full/nn.2130.html

• 22 July 2008 David Willshaw

• 30 Jun 2008 John Davey: Christopher Wills, "The Runaway Brain"

-- DavidSterratt - 31 Oct 2008