EC60007 Comp Neuro
NEW ANNOUNCEMENTS:
(updated 10/11/23) New Reading: Chapter 8 of TB (relevant sections only). Please see Resources section for reading materials on short term plasticity, LTP / LTD and STDP. (updated 09/11/23) END SEM EXAM: 18/11, SATURDAY, 2PM, F300 (Same rules as in MidSems) Reading material: New Reading: Along with your TB, Chapters 1-4 please read posted materials below on Maximally Informative Dimensions and Discrimination. (updated 02/11/23) Project III uploaded (DUE BY 5 PM, 13/11) Reading material: New Reading: Along with your TB, Chapters 1-4 please read posted materials below (in Resources) on spike triggered average. For Information Theory please read Chapter 2 of REF-8 (updated 16/09/23) Reading material: For Phase Plane Analysis and Nonlinear Dynamics: See REF-4 for only the relevant topics - best is class discussions. Assignment I is uploaded (along with solutions), due with MidSem exam copy. MidSem exam rules: Open book, notes, written/printed material, NO sharing of material. Access to internet allowed under supervision, NO sitting and copying in front of your laptop - refer to internet material and go back to your seat and write. (updated 02/09/23) Reading material: For Ion Channels: See REF-3 Chapter 3 (Voltage-Dependent Membrane Permeability) and 4 (Channels and Transporters) and for very detailed reading REF-2 (only specific sections) For MLE see Resources Section, Chapter on Neural Excitability, from REF-5 For HH equations: TB - Chapter 5 on Model Neurons I: Neuroelectronics(relevant parts up to Section 5.7 on Modeling Channels - and more details in paper in Resources section below (hh1952_iv) Project-II Due: 29/09/23 by 5PM (Instructions in the Project file uploaded) MID SEM EXAM on 23/9/23 from 2 PM, F300, E&ECE (updated 18/08/23) Reading material: Background on neuron, synapse, neurotransmitter (Relevant chapters in REF-3 - better to stick to class discussions as it is huge). Link for videos for the background material - shared by email. (updated 17/08/23) Extra Maths/EE (prelims) class on 18/08 5-6PM, 19/08 from 11:00 AM, F-300 E&ECE First Project Due: 25/08/23 by 5PM (Instructions in the Project file uploaded) Makeup class on 21/08 6:30-8PM, F300 (for future missing classes in September) (updated 13/08/23) Make up class on Monday, 14/08 from 6:30 PM, F-300 E&ECE Updated class hours: Wednesdays from 6:30 PM to 8:00 PM and Thursdays from 7:00 PM to 8:30 PM in F-300 E&ECE. (updated 02/08/23) As decided in today's organizational meeting, classes will be held on Wednesdays and Thursdays from 6:30 PM to 8:00 PM in F-300 E&ECE. (updated 31/07/23) First Meeting (organizational): 7 PM 2nd August, Wednesday in F-300 E&ECE. PLEASE NOTE: A related course Neurochemistry BS60003 is running for the last three years. If interested in Neurosciences, in general, you may please take that course as well. |
COURSE INFORMATION:
Autumn 2023-24 (EC60007, CompNeuro)
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CLASS TIMINGS & ROOM: Time: Wed 6:30 PM to 8:00 PM & Thu 7:00 PM to 8:30 PM Location: F-300 E&ECE _________________________________________________________________________ Teaching Assistants Raghavendra (DD), Email raghavendra.kaushik.iitkgp AT jeemail DOT com Ann (PhD student), Email annsoniya AT jeemale DOT com _________________________________________________________________________ Grading Credit: L-T-P, 3-0-0 Weightages: Exams: 50% Projects: 50% [Project-1: 5%; Project-2: 15%; Project-3: 15% & Project-4: 15%] All Class Tests and Assignments will count as Extra Credit, as required. Examination Pattern: Open Book, Notes and Internet; No Email or Messaging DO NOT WORRY ABOUT GRADES - TRY TO HAVE FUN LEARNING _________________________________________________________________________ ______________________________________________________________________________________________________________________
PROJECTS: Project I (To be submitted by: 5PM, 25/08/23)
Project II (To be submitted by: 5PM, 29/09/23)
Project III and Data File (To be submitted by: 5PM, 13/11/23)
Project IV (To be submitted by: TBA)
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PROBLEM SETS: ASSIGNMENT 1: (Due with MidSem exam paper, 23/09)
ASSIGNMENT 1: Solutions
ASSIGNMENT 2: (TBA)
ASSIGNMENT 2: Solutions (To be uploaded)
CLASS TEST 1: Solutions
CLASS TEST 2: Solutions
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RESOURCES:
Getting started with MATLAB: here and here and ODE solving preliminaries here
(Very important that you familiarize yourself with MATLAB; all projects in the course will be MATLAB based)
Week 2-4 additional reading material:
RESOURCES:
Getting started with MATLAB: here and here and ODE solving preliminaries here
(Very important that you familiarize yourself with MATLAB; all projects in the course will be MATLAB based)
Week 2-4 additional reading material:
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For studying MLE in detail and your Project II please use the following book chapter (Chapter 7 of REF-5).
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Available from the following site.
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For further details and origins of cable theory please see: Electrophysiology of a dendritic neuronal model, Wilfrid Rall, Biophysical Journal 1962, 2(2-2), pp 145-167
Spike triggered average details and more can be found in the following papers (other than in your reading material)
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Maximally Informative dimensions
mid_sharpee_et_al_04.pdf | |
File Size: | 643 kb |
File Type: |
Discrimination:
Discrimination based on spike train distances, details are in the following papers and for VP please also see here
Victor and Purpura: Nature and precision of temporal coding in visual cortex: a metric-space analysis, Journal of Neurophysiology Published 1 August 1996 Vol. 76 no. 2, 1310-1326
van Rossum: A novel spike distance, 2001, Neural Computation, 13, 751-763 (here)
KLD: Information Theoretic Analysis of Neural Coding, 2001, Journal of Computational Neuroscience, 10, 47-69 (here)
Plasticity:
Short term plasticity and models: Theoretical models of synaptic short term plasticity, 2013, Frontiers Comp Neuro 7:45 (here)
LTP/LTD and STDP:
Synaptic mechanisms of plasticity in neocortex, 2009, Annu Rev Neurosci 32:33-55 (here)
The spike timing dependence of plasticity, 2012, Neuron, 75(4), 556-571 (here)
Sparse coding/Efficient Coding:
Emergence of simple cell receptive field properties by learning a sparse code for natural images, 1996, Nature 381:607-609 (here)
Efficient coding of natural sounds, 2002, Nature Neuroscience, 5(4):356-63 (here)
Discrimination based on spike train distances, details are in the following papers and for VP please also see here
Victor and Purpura: Nature and precision of temporal coding in visual cortex: a metric-space analysis, Journal of Neurophysiology Published 1 August 1996 Vol. 76 no. 2, 1310-1326
van Rossum: A novel spike distance, 2001, Neural Computation, 13, 751-763 (here)
KLD: Information Theoretic Analysis of Neural Coding, 2001, Journal of Computational Neuroscience, 10, 47-69 (here)
Plasticity:
Short term plasticity and models: Theoretical models of synaptic short term plasticity, 2013, Frontiers Comp Neuro 7:45 (here)
LTP/LTD and STDP:
Synaptic mechanisms of plasticity in neocortex, 2009, Annu Rev Neurosci 32:33-55 (here)
The spike timing dependence of plasticity, 2012, Neuron, 75(4), 556-571 (here)
Sparse coding/Efficient Coding:
Emergence of simple cell receptive field properties by learning a sparse code for natural images, 1996, Nature 381:607-609 (here)
Efficient coding of natural sounds, 2002, Nature Neuroscience, 5(4):356-63 (here)
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BOOKS
Theoretical Neuroscience, (TB, Main Textbook)
Reference Books (parts of the following books will be referred - will be mentioned in required reading)
Neuronal Dynamics, (REF-1)
Ionic Channels of Excitable Membranes, (REF-2)
Principles of Neural Science, (REF-3)
Nonlinear Dynamics and Chaos, (REF-4)
Methods in Neuronal Modeling, (REF-5)
Spikes, (REF-6)
Biophysics of Computation, (REF-7)
Elements of Information Theory, (REF-8)
Signals and Systems (REF-9)
BOOKS
Theoretical Neuroscience, (TB, Main Textbook)
Reference Books (parts of the following books will be referred - will be mentioned in required reading)
Neuronal Dynamics, (REF-1)
Ionic Channels of Excitable Membranes, (REF-2)
Principles of Neural Science, (REF-3)
Nonlinear Dynamics and Chaos, (REF-4)
Methods in Neuronal Modeling, (REF-5)
Spikes, (REF-6)
Biophysics of Computation, (REF-7)
Elements of Information Theory, (REF-8)
Signals and Systems (REF-9)