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General Information | Resources | Reading List | Weekly Schedule | Lecture Notes | Course Material |
I. General Information |
Dr. Yoonsuck Choe
Email: choe(a)tamu.edu
Office: HRBB 322B (or HRBB 507, if I'm not in 322B)
Phone: 845-5466
Office hours: 4pm-5pm, TR
CPSC 420, 625, 636, or 633 (or equivalent) and graduate classification; or consent of instructor.
TR 5:30–6:45pm HRBB 104.
From the course catalog: The architecture of the mammalian cerebral cortex; its modular organization and its network for distributed and parallel processing; cortical networks in perception and memory; neuronal microstructure and dynamical simulation of cortical networks; the cortical network as a proven paradigm for the design of cognitive machines.About this semester: This course will provide necessary background for modeling the structure (anatomy), function (physiology), and growth (development) of neurons, neuronal circuits, and neuronal networks. Various computational concepts, techniques, and tools necessary for modeling neural systems will be introduced. A selected set of latest papers in the field of computational neuroscience and neuroinformatics will be surveyed.
See the Weekly Schedule section for more details.
Grading will be on the absolute scale. The cutoff for an `A' will be at most 90% of total score, 80% for a `B', 70% for a `C', and 60% for a `D'. However, these cutoffs might be lowered at the end of the semester to accomodate the actual distribution of grades.
AGGIE HONOR CODE: An Aggie does not lie, cheat, or steal or tolerate those who do.Upon accepting admission to Texas A&M University, a student immediately assumes a commitment to uphold the Honor Code, to accept responsibility for learning, and to follow the philosophy and rules of the Honor System. Students will be required to state their commitment on examinations, research papers, and other academic work. Ignorance of the rules does not exclude any member of the TAMU community from the requirements or the processes of the Honor System.
For additional information please visit: http://www.tamu.edu/aggiehonor/
Local Course Policy:
- Collaboration is allowed, but final submitted material should be in your own words.
The Americans with Disabilities Act (ADA) is a federal anti-discrimination statute that provides comprehensive civil rights protection for persons with disabilities. Among other things, this legislation requires that all students with disabilities be guaranteed a learning environment that provides for reasonable accommodation of their disabilities. If you believe you have a disability requiring an accommodation, please contact the Department of Student Life, Services for Students with Disabilities, in Cain Hall or call 845-1637.
III. Weekly Schedule and Class Notes |
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1 | 1/19 | Introduction | Course overview, Terminology | slide01.pdf slide02.pdf |
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1 | 1/21 | Introduction, Neuron | Terminology, Shepherd: Chapter 2 | slide02.pdf slide03.pdf |
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2 | 1/26 | Neuron: Computational models | Dayan and Abbott: Chapter 5, Appendix A.4 | slide04.pdf |
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2 | 1/28 | Neuron: Computational models | Dayan and Abbott: Chapter 5, Appendix A.4 | Homework 1 announced | slide05.pdf slide06.pdf |
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3 | 2/2 | Thalamus | Shepherd: Chapter 8 | slide07.pdf |
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3 | 2/4 | Thalamus Model | Choe (2004) [PDF] | slide08.pdf |
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4 | 2/9 | Neuron: Plasticity | Dayan and Abbott: Chapter 8 | Homework 1 due | slide09.pdf |
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4 | 2/11 | Neuron: Plasticity; Neural encoding | Dayan and Abbott: Chapter 8; Dayan and Abbott: Chapter 1 | slide09.pdf slide10.pdf |
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5 | 2/16 | Neural Encoding; Visual System: Computation | Dayan and Abbott: Chapter 1; Miikkulainen et al. (2005) Chapters 1,2,3 | slide10.pdf slide11.pdf |
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5 | 2/18 | Visual System: Development | Miikkulainen et al. [eBook]: Chapter 4, 5 | slide11.pdf |
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6 | 2/23 | Visual System: Development | Miikkulainen et al.: Chapters 4 and 5 | slide11.pdf |
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6 | 2/25 | Visual System: Development | Miikkulainen et al.: Chapters 4 and 5 | slide11.pdf |
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7 | 3/2 | Delay Compensation | Lim and Choe (2006) [PDF] | Homework 2 announced | slide12.pdf |
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7 | 3/4 | Delay Compensation; Neocortex | Lim and Choe (2006) [PDF]; Shepherd: Chapter 12; Douglas and Martin (2004) [PDF] | slide12.pdf slide13.pdf |
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8 | 3/9 | Basal Ganglia; Motor System | Shepherd: Chapter 9; Choe and Smith (2006) [PDF] | Homework 2 topic due | slide14.pdf slide15.pdf |
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8 | 3/11 | Motor System: Decoding Internal State | Choe and Smith (2006) [PDF] | slide15.pdf |
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9 | 3/16 | Spring break | ||||
9 | 3/18 | Spring break | ||||
10 | 3/23 | Motor System: RF Development; Motor System: Response Tuning | Reto Wyss et al. (2006) [PDF]; Emilio Salinas (2006) [PDF] | slide17.pdf slide18.pdf |
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10 | 3/25 | Natural Images: Response Statistics and Salience, Statistical Structure | Choe and Sarma (2006) [PDF]; Xiuwen Liu and DeLiang Wang (2002) [PDF] | slide20.pdf slide21.pdf |
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11 | 3/30 | Guest lecture | Gary Wan (TAMU library), on utilizing library resources | |||
11 | 4/1 | Guest lecture | Huei-Fang Yang (TAMU CSE), on neuronal morphology reconstruction | Homework 2 due | ||
12 | 4/6 | Neuron Morphology | De Schutter: Chapter 6 and 7 | slide22.pdf |
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12 | 4/8 | Neuron Morphology: Statistical Description | Ascoli et al. (2001) [PDF] | slide23.pdf |
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13 | 4/13 | Network Analysis: Complexity | Sporns and Tononi (2002) [PDF]; Sporns et al. (2004) [PDF] | slide24.pdf |
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13 | 4/15 | Network Analysis: Shortest Path; Network Dynamics | Kaiser and Hilgetag (2006) [PDF]; Thiel et al. (2003) [PDF] | slide25.pdf slide26.pdf |
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14 | 4/20 | Systems Neuroscience | Van Hemmen and Sejnowski: Chapters 1, 13, and 19 | slide27.pdf |
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14 | 4/22 | Dynamics | Heinz Von Foerster | slide28.pdf |
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15 | 4/27 | Project Presentation | ||||
15 | 4/29 | Project Presentation |