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  • Bi 177: Principles of Modern Microscopy

    9.00 Credits
    California Institute of Technology

    Lectures and discussions on the underlying principles behind digital, video, differential interference contrast, phase contrast, confocal, and two-photon microscopy. The course will begin with basic geometric optics, characteristics of lenses and microscopes, and principles of accurate imaging. Specific attention will be given to how different imaging elements such as filters, detectors, and objective lenses contribute to the final image. Course work will include critical evaluation of published images and design strategies for simple optical systems. Emphasis in the second half of the course will be placed on the analysis and presentation of two- and three-dimensional images. No prior knowledge of microscopy will be assumed. Instructor: Staff.
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  • Bi 180: Methods in Molecular Genetics

    12.00 Credits
    California Institute of Technology

    An introduction to current molecular genetic techniques including basic microbiological and molecular biological procedures, phage display, bacterial two-hybrid system, protein purification, sequencing, and genomics. The first half of the course involves structured experiments designed to demonstrate the various techniques. The second half is devoted to individual research projects in which the techniques are applied to original studies on an interesting, but not well studied, organism. Graded pass/fail. Instructor: Bertani. Prerequisite:    Bi 122, Bi 10, or instructor’s permission.
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  • Bi 182: Gene Regulation Systems and the Control of Embryonic Development

    6.00 Credits
    California Institute of Technology

    This course will cover the principles of developmental gene regulation in animals with emphasis on causal mechanism; theory, solution, and explanatory power of gene regulatory networks and how they are directly encoded in the genome; regulatory mechanisms underlying embryonic and postembryonic processes of development. Specific examples will be drawn mainly from sea urchin and Drosophila, but comparative treatment of other modes of development will be included. Given in alternate years; not offered 2012–13. Prerequisite:    Bi 8 and at least one of the following: Bi 111, Bi 114, or Bi 122 (or equivalents).
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  • Bi 184: The Primate Visual System

    9.00 Credits
    California Institute of Technology

    This class focuses on the primate visual system, investigating it from an experimental, psychophysical, and computational perspective. The course will focus on two essential problems: 3-D vision and object recognition. Topics include parallel processing pathways, functional specialization, prosopagnosia, object detection and identification, invariance, stereopsis, surface perception, scene perception, navigation, visual memory, multidimensional readout, signal detection theory, oscillations, and synchrony. It will examine how a visual stimulus is represented starting in the retina, and ending in the frontal lobe, with a special emphasis placed on mechanisms for high-level vision in the parietal and temporal lobes. The course will include a lab component in which students design and analyze their own fMRI experiment. Instructor: Tsao. Given in alternate years; offered 2012–13.
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  • Bi 185: Large Scale Brain Networks

    9.00 Credits
    California Institute of Technology

    This class will focus on understanding what is known about the large-scale organization of the brain, focusing on the mammalian brain. What large scale brain networks exist and what are their principles of function? How is information flexibly routed from one area to another? What is the function of thalamocortical loops? We will examine large scale networks revealed by anatomical tracing, functional connectivity studies, and mRNA expression analyses, and explore the brain circuits mediating complex behaviors such as attention, memory, sleep, multisensory integration, decision making, and object vision. While each of these topics could cover an entire course in itself, our focus will be on understanding the master plan--how the components of each of these systems are put together and function as a whole. A key question we will delve into, from both a biological and a theoretical perspective, is: how is information flexibly routed from one brain area to another? We will discuss the communication through coherence hypothesis, small world networks, and sparse coding. Instructor: Tsao. Given in alternate years, offered 2013–14.
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  • Bi 186: Vision: From Computational Theory to Neuronal Mechanisms

    12.00 Credits
    California Institute of Technology

    Lecture, laboratory, and project course aimed at understanding visual information processing, in both machines and the mammalian visual system. The course will emphasize an interdisciplinary approach aimed at understanding vision at several levels: computational theory, algorithms, psychophysics, and hardware (i.e., neuroanatomy and neurophysiology of the mammalian visual system). The course will focus on early vision processes, in particular motion analysis, binocular stereo, brightness, color and texture analysis, visual attention and boundary detection. Students will be required to hand in approximately three homework assignments as well as complete one project integrating aspects of mathematical analysis, modeling, physiology, psychophysics, and engineering. Given in alternate years; not offered 2012–13.
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  • Bi 187: Neural Computation

    9.00 Credits
    California Institute of Technology

    This course investigates computation by neurons. Of primary concern are models of neural computation and their neurological substrate, as well as the physics of collective computation. Thus, neurobiology is used as a motivating factor to introduce the relevant algorithms. Topics include rate-code neural networks, their differential equations, and equivalent circuits; stochastic models and their energy functions; associative memory; supervised and unsupervised learning; development; spike-based computing; single-cell computation; error and noise tolerance. Instructor: Perona.
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  • Bi 188: Human Genetics and Genomics

    6.00 Credits
    California Institute of Technology

    Introduction to the genetics of humans. Subjects covered include human genome structure, genetic diseases and predispositions, the human genome project, forensic use of human genetic markers, human variability, and human evolution. Instructor: Wold. Given in alternate years; offered 2012–13.
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  • Bi 189: The Cell Cycle

    6.00 Credits
    California Institute of Technology

    The course covers the mechanisms by which eukaryotic cells control their duplication. Emphasis will be placed on the biochemical processes that ensure that cells undergo the key events of the cell cycle in a properly regulated manner. Instructor: Dunphy. Prerequisite:    Bi 8 and Bi 9.
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  • Bi 190: Advanced Genetics

    6.00 Credits
    California Institute of Technology

    Lectures and discussions covering how genetic analysis is used to solve biological problems. Emphasis is on genetic and genome-scale approaches used in model organisms such as yeast, flies, worms, and mice to elucidate the function of genes, genetic pathways and genetic networks. Instructor: Sternberg. Given in alternate years; offered 2012-13. Prerequisite:    Bi 122.
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