Proof for the 2012-2013 Duke University Bulletin of Undergraduate Instruction, p. 1 RETURN PROOF BY MARCH 6, 2012 TO INGEBORG WALTHER: waltheri@duke.edu ________________________________________________________________________________ This is a proof for the 2012-2013 Bulletin of Undergraduate Instruction. This file should be in track-change mode (if it isn’t, please type [Ctrl]+[Shift]+e). Please do not change the title of this file, or turn off the track-change setting. The only changes permissible on this proof are to: Change faculty listings (in both the beginning of this proof, and in course listings) Indicating courses that have been processed by the University Registrar's office that are missing from the proof Correct misspellings Indicating curriculum changes that have been officially approved by the Arts and Sciences Curriculum Committee through Dean Walther's office that are missing from the proof; Also, PLEASE IGNORE WHAT MAY LOOK LIKE INCORRECT OR AWKWARD FORMATTING (e.g., font sizes and styles, indents, spacing between paragraphs or words). Formatting irregularities are a function of the translation of the document from publishing software into Word format. All formatting will be finalized and proofed before publication. This proof is supplied to revise only content, not formatting or layout. For questions, contact sarah.kibler@duke.edu. Medicine (School)—Graduate (School) Basic Science Courses Open to Undergraduates Qualified students in arts and sciences may select courses from the following offered by the graduate departments associated with the School of Medicine. A major is not offered to undergraduates in any of the departments listed below. For permission to register for these courses and for further information, see Professors Spicer (biochemistry), Endow (cell biology), Marchuk (University Program In Genetics), Dawson (immunology), Valdivia (molecular genetics and microbiology), Beese (structural biology and biophysics), W. C. Hall (neurobiology), Abraham (pathology), and Schwartz-Bloom (pharmacology and cancer biology). BIOCHEMISTRY (BIOCHEM) 301. Introductory Biochemistry I: Intermediary Metabolism. Chemistry of the constituents of proteins, lipids, carbohydrates, and nucleic acids and their metabolic interrelationships. Prerequisite: two semesters of organic chemistry. Instructors: Coggins and staff. One course. 302. Introductory Biochemistry II. Structure, function, and biosynthesis of biological macromolecules and regulation of their synthesis. Intermediary metabolism and metabolic utilization of energy. Biochemistry of biological membranes, receptors, and signal transduction via membrane receptors. Prerequisite: organic chemistry and Biochemistry 301. Instructors: Been and staff. One course. 593. Research Independent Study. R Individual research in a field of special interest, under the supervision of a faculty member, the major product of which is a substantive paper or written report containing significant analysis and interpretation of a previously approved topic. Designed for students interested in either a laboratory or a library project in biochemistry. One course for undergraduate students. One to twelve units for graduate students. Instructor: Staff. Variable credit. 622. Structure of Biological Macromolecules. R Computer graphics intensive study of some of the biological macromolecules whose three-dimensional structures have been determined at high resolution. Emphasis on the patterns and determinants of protein structure. Two-hour discussion session each week along with computer-based lessons and projects. Instructors: D. Richardson and J. Richardson. One course. C-L: Structural Biology and Biophysics 622, Computational Biology and Bioinformatics 622 658. Structural Biochemistry I. Principles of modern structural biology. Protein-nucleic acid recognition, enzymatic reactions, viruses, immunoglobulins, signal transduction, and structure-based drug design described in terms of the atomic properties of biological macromolecules. Discussion of methods of structure determination with particular emphasis on macromolecular X-ray crystallography NMR methods, homology modeling, and bioinformatics. Students use molecular graphics tutorials and Internet databases to view and analyze structures. Prerequisites: organic chemistry and introductory biochemistry. Instructors: Beese and staff. Half course. C-L: Cell and Molecular Biology 658, Cell Biology 658, University Program in Genetics 658, Immunology 658, Structural Biology and Biophysics 658, Computational Biology and Bioinformatics 658 659. Structural Biochemistry II. Continuation of Biochemistry 658. Structure/function analysis of proteins as enzymes, multiple ligand binding, protein folding and stability, allostery, protein-protein interactions. Prerequisites: Biochemistry 658, organic chemistry, physical chemistry, and introductory biochemistry. Instructors: Hellinga and Proof for the 2012-2013 Duke University Bulletin of Undergraduate Instruction, p. 2 RETURN PROOF BY MARCH 6, 2012 TO INGEBORG WALTHER: waltheri@duke.edu ________________________________________________________________________________ staff. Half course. C-L: Cell Biology 659, Immunology 659, Computational Biology and Bioinformatics 659, Structural Biology and Biophysics 659, University Program in Genetics 659 667. Biochemical Genetics I: DNA and Genome Stability. Chromosome structure, replication, repair, genetic recombination, mutation and chromosome rearrangement. Minicourse, 1st half-semester. Instructors: Rusche and staff. Half course. 668. Biochemical Genetics II: From RNA to Protein. Mechanisms of transcription, splicing, catalytic RNA, RNA editing, mRNA stability and translation. Mini-course, 2nd half semester. Instructors: Steege and Staff. Half course. C-L: Cell Biology 668, Immunology 668, University Program in Genetics 668 681. Physical Biochemistry. Basic principles of physical chemistry as applied to biological systems. Topics include thermodynamics, kinetics, statistical mechanics, spectroscopy, and diffraction theory. Concepts discussed in the context of the biochemistry and behavior of biological macromolecules. Emphasis on quantitative understanding of biochemical phenomena, with extensive problem solving as an instructive tool. Prerequisite: undergraduate physical chemistry and one year of calculus. Instructor: Oas and staff. One course. C-L: Structural Biology and Biophysics 681 790S. Seminar (Topics). Topics and instructors announced each semester. 2 units or variable. Instructor: Staff. Variable credit. CELL BIOLOGY (CELLBIO) 493. Research Independent Study. R Individual Research in a field of special interest under the supervision of a faculty member, the central goal of which is a substantive paper or written report containing significant analysis and interpretation of a previously approved topic. Consent of instructor required. Instructor: Staff. One course. C-L: Marine Sciences 503. Introduction to Physiology. Modern organ physiology; cellular physiology, organ system physiology including cardiovascular, respiratory, renal gastrointestinal, endocrine, reproductive, muscle and nervous. Mini course. Prerequisite: elementary biology. Instructors: Jakoi and Vigna. One course. 658. Structural Biochemistry I. Half course. C-L: see Biochemistry 658; also C-L: Cell and Molecular Biology 658, University Program in Genetics 658, Immunology 658, Structural Biology and Biophysics 658, Computational Biology and Bioinformatics 658 659. Structural Biochemistry II. Half course. C-L: see Biochemistry 659; also C-L: Immunology 659, Computational Biology and Bioinformatics 659, Structural Biology and Biophysics 659, University Program in Genetics 659 668. Biochemical Genetics II: From RNA to Protein. Half course. C-L: see Biochemistry 668; also C-L: Immunology 668, University Program in Genetics 668 720. Physiology and Medicine of Extreme Environments. Advanced topics in physiology and medicine of ambient pressure, immersion, gravity, temperature and gas composition. Environments considered include: diving, hyperbaric medicine; hot/cold terrestrial, water operations; microgravity, high-g acceleration; high altitude,space. Basic mechanisms and medical management of: decompression sickness; altitude sickness; hypothermia and hyperthermia; hypoxia; carbon monoxide poisoning; oxygen toxicity. Practical applications: pressure vessel design, operation; life support equipment; cardiorespiratory physiology measurements at low and high pressure; simulated dive and flight (optional). Prerequisites: consent of the course instructor. Instructor: Vann. One course. 750A. Respiratory Proteins and the Environment. NS Molecular diversity in structure, function and evolution of respiratory proteins. Field trips to biodiverse areas of Costa Rica and coastal NC complement text and lectures. Covers molecular adaptations that underlie macroscopic biodiversity, blood functions and blood pathogens, oxidative and nitrosative stress. Lectures and readings on the balance between pathways for metabolic oxygen utilization and alternative disease-causing pathways. (Given at Beaufort.) Field trip to Costa Rica required. Prerequisite: one semester of organic chemistry or consent of instructor. Instructor: C. Bonaventura. One course. CL: Environment 750A, Marine Sciences, Marine Science and Conservation CELL AND MOLECULAR BIOLOGY (CMB) 658. Structural Biochemistry I. Half course. C-L: see Biochemistry 658; also C-L: Cell Biology 658, University Program in Genetics 658, Immunology 658, Structural Biology and Biophysics 658, Computational Biology and Bioinformatics 658 733. Experimental Design and Biostatistics for Basic Biomedical Scientists. Half course. C-L: see Pharmacology and Cancer Biology 733; also C-L: Neurobiology 733 Proof for the 2012-2013 Duke University Bulletin of Undergraduate Instruction, p. 3 RETURN PROOF BY MARCH 6, 2012 TO INGEBORG WALTHER: waltheri@duke.edu ________________________________________________________________________________ UNIVERSITY PROGRAM IN GENETICS AND GENOMICS (UPGEN) 533. Genetic Epidemiology. This course will cover traditional genetic epidemiologic methods such as study design, linkage analysis and genetic association. Instructor: Ashley-Koch. One course. 658. Structural Biochemistry I. Half course. C-L: see Biochemistry 658; also C-L: Cell and Molecular Biology 658, Cell Biology 658, Immunology 658, Structural Biology and Biophysics 658, Computational Biology and Bioinformatics 658 659. Structural Biochemistry II. Half course. C-L: see Biochemistry 659; also C-L: Cell Biology 659, Immunology 659, Computational Biology and Bioinformatics 659, Structural Biology and Biophysics 659 668. Biochemical Genetics II: From RNA to Protein. Half course. C-L: see Biochemistry 668; also C-L: Cell Biology 668, Immunology 668 793. Research Independent Study. R Individual research and reading of the primary literature in a field of special interest, under the supervision of a faculty member, the major product of which is a substantive paper or written report containing significant analysis and interpretation of a previously approved topic. Consent of the instructor required. Instructor: Staff (Genetics Program). One course. 794. Research Independent Study. R Individual research and reading of the primary literature in a field of special interest, under the supervision of a faculty member, the major product of which is a substantive paper or written report containing significant analysis and interpretation of a previously approved topic. Consent of the instructor required. Instructor: Staff (Genetics Program). One course. IMMUNOLOGY (IMMUNOL) 493. Research Independent Study. R Individual research and reading of the primary literature in a field of special interest, under the supervision of a faculty member, the major product of which is a substantive paper or written report containing significant analysis and interpretation of a previously approved topic. Consent of instructor required. Instructor: Staff. One course. 494. Research Independent Study. R Individual research and reading of the primary literature in a field of special interest, under the supervision of a faculty member, the major product of which is a substantive paper or written report containing significant analysis and interpretation of a previously approved topic. Consent of instructor required. Instructor: Staff. One course. 523S. Computational Immunology. One course. C-L: see Computational Biology and Bioinformatics 523S 544. Principles of Immunology. NS, R An introduction to the molecular and cellular basis of the immune response. Topics include anatomy of the lymphoid system, lymphocyte biology, antigen-antibody interactions, humoral and cellular effector mechanisms, and control of immune responses. Prerequisites: Biology 220 and Chemistry 201DL. Instructors: He and Zhang. One course. C-L: Biology 515 658. Structural Biochemistry I. Half course. C-L: see Biochemistry 658; also C-L: Cell and Molecular Biology 658, Cell Biology 658, University Program in Genetics 658, Structural Biology and Biophysics 658, Computational Biology and Bioinformatics 658 659. Structural Biochemistry II. Half course. C-L: see Biochemistry 659; also C-L: Cell Biology 659, Computational Biology and Bioinformatics 659, Structural Biology and Biophysics 659, University Program in Genetics 659 668. Biochemical Genetics II: From RNA to Protein. Half course. C-L: see Biochemistry 668; also C-L: Cell Biology 668, University Program in Genetics 668 MOLECULAR GENETICS AND MICROBIOLOGY (MGM) 521. Computational Gene Expression Analysis. QS C-L: see Computational Biology and Bioinformatics 521; also C-L: Statistical Science 505 522. Critical Readings in Genetics and Genomics. One course. C-L: University Program in Genetics 522 552. Virology. Molecular biology of mammalian viruses, with emphasis on mechanisms of replication, virus-host interactions, viral pathogenicity, and the relationship of virus infection to neoplasia. Instructor: Cullen and staff. One course. 582. Microbial Pathogenesis. Modern molecular genetic approaches to understanding the pathogenic bacteria and fungi. Underlying mechanisms of pathogenesis and host-parasite relationships that contribute to the infectious disease process. Instructor: McCusker, Abraham, and staff. One course. Proof for the 2012-2013 Duke University Bulletin of Undergraduate Instruction, p. 4 RETURN PROOF BY MARCH 6, 2012 TO INGEBORG WALTHER: waltheri@duke.edu ________________________________________________________________________________ 593. Research Independent Study. R Independent research in Molecular Genetics and Microbiology. Instructor: Staff. One course. NEUROBIOLOGY (NEUROBIO) 193FS. Neurobiology of Mind. NS Introduction to the fundamental principles of brain organization and mechanisms. Open only to students in the Focus Program. Instructor: Hall. One course. C-L: Psychology 193FS, Neuroscience 193FS 195FS. Neuroeconomics: The Neurobiology of Decision Making. NS, SS Emerging ideas in neuroeconomics research. Topics include basic structural and functional organization of the brain, strengths and limitations of techniques in neuroscience, introduction of concepts from economics into neuroscience, and impact of neuroscience on economics models. Open only to students in the Focus Program. Instructor: Huettel. One course. C-L: Neuroscience 195FS 198S. The Origin of Species. A chapter-by-chapter discussion and analysis of Charles Darwin's The Origin of Species (1859). Permission of instructor required. Instructor: Hall. Half course. 393. Research Independent Study. R Individual research and reading of the primary literature in a field of special interest, under the supervision of a faculty member, the major product of which is a substantive paper or written report containing significant analysis and interpretation of a previously approved topic. Consent of instructor required. Instructor: Staff. One course. 541. Introduction to Theoretical Neuroscience. NS, QS Mathematical introduction to the biophysics and circuits underlying biological and neural computation. Topics covered include neural coding at single cell and population level. Reverse correlation and kernel estimation, coordinate transformations, Bayesian decoding and information theory. Introduction to Hodgkin-Huxley and other related models of neural excitability. Phase-plane analysis of single and coupled neural oscillators. Models of synaptic transmission and plasticity. Biophysical basis of working memory. Hopfield and related models of long term memory. Stochastic chemical reactions in small volumes. Biochemical computation in single cells. Instructor: Raghavachari. One course. 557. Vision. Understanding the machinery of vision and its perceptual consequences. How we see brightness, color, form, motion, depth; the integration of visual and auditory information to generate unified multimodal representations; using vision to probe cognitive aspects of brain function; exploring visual aesthetics. The course is designed for advanced undergraduates and beginning graduate students. Instructor: Fitzpatrick and Purves. One course. 559. The Biological Basis of Music. Examine how and why we hear what we do, from intra-species communication to music. Consider the biological basis of music, in particular the relationship between music and speech. Comparison between the operating principles of the auditory system with what is presently known about vision. Limited inquiry into the neurobiology of aesthetics. Instructor: Purves. One course. C-L: Philosophy 559, Psychology 580 PATHOLOGY (PATHOL) 201T. Tutorial in Sports and Medicine. Reading course focusing on a series of books highlighting the relationship between sports and medicine. Substantial analytical paper required to be submitted at the end of the semester. Consent of instructor required. Instructor: Friedman. One course. 202T. Tutorial in Human Disease. Reading course focusing on a series of books highlighting different areas of medicine. Substantial analytical paper required to be submitted at the end of semester. Consent of instructor required. Instructor: Friedman. One course. 293. Research Independent Study. R Individual research and reading of the primary literature in a field of special interest, under the supervision of a faculty member, the major product of which is a substantive written report or oral presentation containing significant analysis and interpretation of a previously approved topic. Consent of instructor required. Instructor: Staff. One course. PHARMACOLOGY AND CANCER BIOLOGY (PHARM) 190FS. Chemistry of the Brain: Sex, Eating, and Addiction. NS, R The neurochemistry of the brain. The basic mechanisms, focus on how the brain causes three kinds of behavior: sex, eating, and addiction. Topics such as, how drugs affect the brain, why people get fat, and why anorectic drugs not work over the long run. The neurobiological basis of sexual behavior and sexual differentiation of the brain. Different models of addiction: i.e. a neurochemical adaptation in the brain, a disease, or a moral weakness. Open only to students in the Focus Program. Instructor: Kuhn. One course. Proof for the 2012-2013 Duke University Bulletin of Undergraduate Instruction, p. 5 RETURN PROOF BY MARCH 6, 2012 TO INGEBORG WALTHER: waltheri@duke.edu ________________________________________________________________________________ 293. Research Independent Study in Science Education. R Individual research in a field of science education (with reference to pharmacology) at the precollege level, under the supervision of a faculty member, resulting in a substantive paper or written report containing significant analysis and interpretation of study results. Open to (juniors and seniors) with consent of supervising instructor. Prerequisite: Biology 25L; Chemistry 21L or 23L. Instructor: Schwartz-Bloom. One course. 294. Research Independent Study in Science Education. R Continuation of Pharmacology 293. Open to juniors and seniors with consent of supervising instructor. Prerequisites: Biology 25L; Chemistry 21L or 23L; Pharmacology 293. Consent of instructor required. Instructor: Schwartz-Bloom. One course. 350. Pharmacology: Drug Actions and Reactions. Mechanisms of drug action, concepts of drug toxicity, resistance, tolerance, and drug interactions. Examples of how drugs affect the autonomic and central nervous systems, the cardiovascular and endocrine systems, and how drugs treat infection and cancer. This course is designed for both science and nonscience majors, but preference will be given to junior biology majors concentrating in pharmacology. Prerequisite: introductory biology (Biology 25L) and chemistry (Chemistry 11L, 12L). Instructor: Schwartz-Bloom. One course. C-L: Neuroscience 350 360. Drugs, Brain, and Behavior (B). NS Mechanisms by which psychoactive drugs act. Changes that occur with chronic use of drugs; drug abuse and dependence. Social and legal implications of psychoactive drugs. Designed for both science and nonscience majors. Emphasis on the reasoning, research designs, and methods for understanding drug effects. Prerequisite: introductory biology (Biology 25L) and chemistry (Chemistry 11L, 12L). Instructor: Kuhn. One course. C-L: Psychology 274, Neuroscience 360 370S. Pharmacogenomics and Personalized Medicine. NS Introduction to human genetic and genomics and how the topics relate to modern medicine and treatment. Special emphasis placed on principles of human genomics (including human genome organization, complex disease and large scale genomic analysis) and how they relate to the field of translational genomics (bridging human genetics to drug design). Discussion of ethical and societal issues concerning personalized medicine as well as future implications to modern health care. Current journal articles highlighting new genomic treatments will be presented and discussed. Prerequisite: Biology 201L. Instructor: Staff. One course. 393. Research Independent Study. R Individual research in a pharmacology-related area under the supervision of a faculty member, resulting in a substantive paper or written report containing significant analysis and interpretation of the study results. Open to first-year students and sophomores with consent of supervising instructor. Instructor: Staff. One course. 394. Research Independent Study. R Individual research in a pharmacology-related area under the supervision of a faculty member, resulting in a substantive paper or written report containing significant analysis and interpretation of the study results. Open to first-year students and sophomores with consent of supervising instructor. Instructor: Staff. One course. 471S. Reward and Addiction (B). NS One course. C-L: see Psychology 471S; also C-L: Neuroscience 471S 493. Research Independent Study. R Individual research in a pharmacology-related area under the supervision of a faculty member, resulting in a substantive paper or written report containing significant analysis and interpretation of the study results. Open to juniors and seniors with consent of supervising instructor. Instructor: Staff. Variable credit. 494. Research Independent Study. R Individual research in a pharmacology-related area under the supervision of a faculty member, resulting in a substantive paper or written report containing significant analysis and interpretation of the study results. Open to juniors and seniors with consent of supervising instructor. Instructor: Staff. One course. 495. Research Independent Study. R Individual research in a pharmacology-related area under the supervision of a faculty member, resulting in a substantive paper or written report containing significant analysis and interpretation of the study results. Open to juniors and seniors who have already taken Pharmacology 493 and 494, with consent of supervising instructor. Instructor: Staff. One course. 533. Essentials of Pharmacology and Toxicology. Drug absorption, distribution, excretion, and metabolism. Structure and activity relationships; drug and hormone receptors and target cell responses. Consent of instructor required. Prerequisite: introductory biology; Chemistry 201DL; Mathematics 21 and 122. Instructor: Slotkin and staff. One course. C-L: Neuroscience 533 535. Interdisciplinary Approaches to Pharmacology Part II. NS Several model systems (CNS, cardiovascular, and infectious diseases) will be used to explore the molecular biochemical, and physiological basis of drug action. Consent of instructor required. Instructor: Whorton. One course. Proof for the 2012-2013 Duke University Bulletin of Undergraduate Instruction, p. 6 RETURN PROOF BY MARCH 6, 2012 TO INGEBORG WALTHER: waltheri@duke.edu ________________________________________________________________________________ 554. Mammalian Toxicology. Principles of toxicology as related to humans. Emphasis on the molecular basis for toxicity of chemical and physical agents. Subjects include metabolism and toxicokinetics, toxicologic evaluation, toxic agents, target organs, toxic effects, environmental toxicity, management of poisoning, epidemiology, risk assessment, and regulatory toxicology, Prerequisite: introductory biology, and Chemistry 201DL, or consent of instructor. Instructor: Abou-Donia and staff. One course. 693. Research Independent Study in Science Education. R Individual research in a field of science education (with reference to pharmacology) at the precollege/college level, under the supervision of a faculty member, resulting in a substantive paper or written report containing significant analysis and interpretation of study results. Open to all qualified seniors and graduate students with consent of supervising instructor. Instructor: SchwartzBloom. One course. 694. Research Independent Study in Science Education. R Individual research in a field of science education (with reference to pharmacology) at the precollege/college level, under the supervision of a faculty member, resulting in a substantive paper or written report containing significant analysis and interpretation of study results. Open to all qualified seniors and graduate students with consent of supervising instructor. Instructor: SchwartzBloom. One course. STRUCTURAL BIOLOGY AND BIOPHYSICS (SBB) 622. Structure of Biological Macromolecules. R One course. C-L: see Biochemistry 622; also C-L: Computational Biology and Bioinformatics 622 659. Structural Biochemistry II. Half course. C-L: see Biochemistry 659; also C-L: Cell Biology 659, Immunology 659, Computational Biology and Bioinformatics 659, University Program in Genetics 659