printer friendly pageGENE 199: Undergraduate Research
Students undertake investigations sponsored by individual faculty members. Prerequisite: consent of instructor.
Terms: Aut, Win, Spr, Sum
| Units: 1-18
| Repeatable
for credit
Instructors:
Altman, R. (PI)
;
Baker, J. (PI)
;
Barna, M. (PI)
;
Bassik, M. (PI)
;
Bhatt, A. (PI)
;
Brown, P. (PI)
;
Brunet, A. (PI)
;
Bustamante, C. (PI)
;
Calos, M. (PI)
;
Cherry, J. (PI)
;
Cohen, S. (PI)
;
Fire, A. (PI)
;
Fordyce, P. (PI)
;
Francke, U. (PI)
;
Fuller, M. (PI)
;
Gitler, A. (PI)
;
Greenleaf, W. (PI)
;
Herzenberg, L. (PI)
;
Herzenberg, L. (PI)
;
Kay, M. (PI)
;
Kim, S. (PI)
;
Kirkegaard, K. (PI)
;
Li, J. (PI)
;
Lipsick, J. (PI)
;
Ormond, K. (PI)
;
Pringle, J. (PI)
;
Pritchard, J. (PI)
;
Quake, S. (PI)
;
Sage, J. (PI)
;
Sherlock, G. (PI)
;
Sidow, A. (PI)
;
Snyder, M. (PI)
;
Tang, H. (PI)
;
Villeneuve, A. (PI)
;
Vollrath, D. (PI)
;
Winslow, M. (PI)
GENE 209: Current Topics in Human, Population, and Statistical Genomics
Intensive seminar/workshop. Topics, drawn from current and past literature, may include: assessing and population genetic analysis of genomic variation; genome-to-phenome mapping; reconstructing demographic history from genome sequence data; domestication genomics; host-pathogen genome evolution; detecting signatures of selection; experimental design in human genetics; linkage and association mapping; ethical and social issues in human, plant, and animal genetics research. Emphasis on analysis and logic or experimental and observational genomics research. Faculty-led discussion with evaluation of response papers, problem sets, and intensive course project. May be repeated for credit.
Terms: Spr
| Units: 2
| Repeatable
for credit
GENE 210: Genomics and Personalized Medicine (DBIO 220)
Principles of genetics underlying associations between genetic variants and disease susceptibility and drug response. Topics include: genetic and environmental risk factors for complex genetic disorders; design and interpretation of genome-wide association studies; pharmacogenetics; full genome sequencing for disease gene discovery; population structure and genetic ancestry; use of personal genetic information in clinical medicine; ethical, legal, and social issues with personal genetic testing. Hands-on workshop making use of personal or publicly available genetic data. Prerequisite:
GENE 202,
Gene 205 or
BIOS 200.
Terms: Spr
| Units: 3
Instructors:
Gitler, A. (PI)
;
Kim, S. (PI)
GENE 212: Introduction to Biomedical Informatics Research Methodology (BIOE 212, BIOMEDIN 212, CS 272)
Hands-on software building. Student teams conceive, design, specify, implement, evaluate, and report on a software project in the domain of biomedicine. Creating written proposals, peer review, providing status reports, and preparing final reports. Guest lectures from professional biomedical informatics systems builders on issues related to the process of project management. Software engineering basics. Because the team projects start in the first week of class, attendance that week is strongly recommended. Prerequisites:
BIOMEDIN 210 or 211 or 214 or 217 or consent of instructor.
Terms: Spr
| Units: 3
Instructors:
Altman, R. (PI)
GENE 213: Neurogenetics Core
For first-year Neurosciences graduate students; open to other graduate students as space permits with preference given to Neurosciences students. Intensive introduction to genetics. Classical and modern genetics with an emphasis on their application to neurosciences research. Topics include: model organisms, genetic screens, genome editing, genetically-encoded tools, GWAS, next-generation sequencing, epigenetics, genetic interactions, human genetics, and neurological disease genetics. Interactive class with student-led discussions, presentations, and group work, including next-generation sequencing workshops and data analysis tutorials. Limited enrollment.
Terms: Spr
| Units: 1
Instructors:
Gitler, A. (PI)
GENE 215: Frontiers in Biological Research (BIOC 215, DBIO 215)
Literature discussion in conjunction with the Frontiers in Biological Research seminar series in which investigators present current work. Students and faculty meet beforehand to discuss papers from the speaker's primary research literature. Students meet with the speaker after the seminar to discuss their research and future directions, commonly used techniques to study problems in biology, and comparison between the genetic and biochemical approaches in biological research.
Terms: Aut, Win, Spr
| Units: 1
| Repeatable
3 times
(up to 3 units total)
GENE 221: Current Issues in Aging
Current research literature on genetic mechanisms of aging in animals and human beings. Topics include: mitochondria mutations, insulin-like signaling, sirtuins, aging in flies and worms, stem cells, human progeria, and centenarian studies. Prerequisite:
GENE 203, 205 or
BIOS 200.
Terms: Spr
| Units: 2
GENE 232: Advanced Imaging Lab in Biophysics (APPPHYS 232, BIO 132, BIO 232, BIOPHYS 232)
Laboratory and lectures. Advanced microscopy and imaging, emphasizing hands-on experience with state-of-the-art techniques. Students construct and operate working apparatus. Topics include microscope optics, Koehler illumination, contrast-generating mechanisms (bright/dark field, fluorescence, phase contrast, differential interference contrast), and resolution limits. Laboratory topics vary by year, but include single-molecule fluorescence, fluorescence resonance energy transfer, confocal microscopy, two-photon microscopy, microendoscopy, and optical trapping. Limited enrollment. Recommended: basic physics, Biology core or equivalent, and consent of instructor.
Terms: Spr
| Units: 4
Instructors:
Block, S. (PI)
;
Ehrhardt, D. (PI)
;
Greenleaf, W. (PI)
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Instructors:
Block, S. (PI)
;
Ehrhardt, D. (PI)
;
Greenleaf, W. (PI)
;
Schnitzer, M. (PI)
;
Hogan, D. (TA)
GENE 241: Biological Macromolecules (BIOC 241, BIOPHYS 241, SBIO 241)
The physical and chemical basis of macromolecular function. Topics include: forces that stabilize macromolecular structure and their complexes; thermodynamics and statistical mechanics of macromolecular folding, binding, and allostery; diffusional processes; kinetics of enzymatic processes; the relationship of these principles to practical application in experimental design and interpretation. The class emphasizes interactive learning, and is divided equally among lectures, in-class group problem solving, and discussion of current and classical literature. Enrollment limited to 50. Prerequisites: Background in biochemistry and physical chemistry recommended but material available for those with deficiency in these areas; undergraduates with consent of instructor only.
Terms: Spr
| Units: 3-5
GENE 243: Intellectual Propery: Scientific Evidence in Patent Litigation
(Same as
LAW 343) Open to clinical MD and graduate students. Explores the role of scientific experts in patent infringement litigation. In other areas of the law where scientific experts are used -- medical malpractice, environmental law, criminal law -- the science itself is often in dispute. In patent cases, however, the parties generally agree on the science. This affects the relationship between the lawyer and the expert and the substantive content of their interactions. Patent experts need to be able to explain science to the judge and jury. But they also must help the litigators choose which legal issues to press and which to concede, and to be aware of how the complications of the science might help, hurt, obscure or reveal how the law should be applied to the facts. The class examines judicial decisions and trial documents involving scientific evidence in patent litigation, followed by work in teams on final projects: simulations of expert testimony in a patent case. Simulations are performed at the end of the quarter before panels of practicing patent lawyers. Prerequisite: graduate students must have completed their required coursework and have TGR status.
Terms: Spr
| Units: 3
Instructors:
Morris, R. (PI)
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