GENE 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);
Ashley, E. (PI);
Attardi, L. (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);
Curtis, C. (PI);
Davis, R. (PI);
Fire, A. (PI);
Ford, J. (PI);
Fordyce, P. (PI);
Francke, U. (PI);
Frydman, J. (PI);
Fuller, M. (PI);
Gitler, A. (PI);
Greely, H. (PI);
Greenleaf, W. (PI);
Hanson-Kahn, A. (PI);
Herzenberg, L. (PI);
Kay, M. (PI);
Kim, S. (PI);
Kirkegaard, K. (PI);
Kundaje, A. (PI);
Li, J. (PI);
Lipsick, J. (PI);
Montgomery, S. (PI);
Nakauchi, H. (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);
Stearns, T. (PI);
Steinmetz, L. (PI);
Tang, H. (PI);
Ting, A. (PI);
Urban, A. (PI);
Villeneuve, A. (PI);
Vollrath, D. (PI);
Winslow, M. (PI);
Campion, M. (GP);
Kanagawa, K. (GP);
Thompson, J. (GP)
GENE 204:
Essentials of Multidimensional Flow Cytometry
Keep pace with automated flow cytometry data analysis via hands-on training. Learn how to design multicolor flow cytometry experiments. Elements of quantitative flow cytometry. Course for all students, staff and faculty. Prerequisite is background in topic.
Terms: Win, Spr
| Units: 1
| Repeatable
2 times
(up to 2 units total)
GENE 208:
Gut Microbiota in Health and Disease (BIOE 221G, MI 221)
Preference to graduate students. Focus is on the human gut microbiota. Students enrolling for 3 units receive instruction on computational approaches to analyze microbiome data and must complete a related project.
Terms: Spr
| Units: 2-3
GENE 212:
Introduction to Biomedical Informatics Research Methodology (BIOE 212, BIOMEDIN 212, CS 272)
Capstone Biomedical Informatics (BMI) experience. 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. Issues related to research reproducibility. 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. Preference to BMI graduate students. Consent of instructor required.
Terms: Spr
| Units: 3-5
GENE 215:
Frontiers in Biological Research (BIOC 215, DBIO 215)
Students analyze cutting edge science, develop a logical framework for evaluating evidence and models, and enhance their ability to design original research through exposure to experimental tools and strategies. The class runs in parallel with the Frontiers in Biological Research seminar series. Students and faculty meet on the Tuesday preceding each seminar to discuss a landmark paper in the speaker's field of research. Following the Wednesday seminar, students meet briefly with the speaker for a free-range discussion which can include insights into the speakers' paths into science and how they pick scientific problems.
Terms: Aut, Win, Spr
| Units: 1
| Repeatable
3 times
(up to 3 units total)
GENE 216:
Practical Considerations and Industry Perspective on Academic-Industry Collaborations
Provides an overview, fundamentals and practical considerations for different aspects of academic-industry collaborations by inviting current industrial experts to share their views and to answer questions. The different aspects include collaboration models, proposal building, IP right sharing, funding opportunities, sabbatical and internship in industry, industry job searching, etc. This class also serves as a platform to connect with Bay Area biotech and pharmaceutical executives and experts.
Terms: Spr
| Units: 1
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 224:
Principles of Pharmacogenomics (BIOMEDIN 224)
This course is an introduction to pharmacogenomics, including the relevant pharmacology, genomics, experimental methods (sequencing, expression, genotyping), data analysis methods and bioinformatics. The course reviews key gene classes (e.g., cytochromes, transporters) and key drugs (e.g., warfarin, clopidogrel, statins, cancer drugs) in the field. Resources for pharmacogenomics (e.g., PharmGKB, Drugbank, NCBI resources) are reviewed, as well as issues implementing pharmacogenomics testing in the clinical setting. Reading of key papers, including student presentations of this work; problem sets; final project selected with approval of instructor. Prerequisites: two of BIO 41, 42, 43, 44X, 44Y or consent of instructor.
Terms: Aut, Win, Spr, Sum
| Units: 3
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
GENE 245:
Statistical and Machine Learning Methods for Genomics (BIO 268, BIOMEDIN 245, CS 373, STATS 345)
Introduction to statistical and computational methods for genomics. Sample topics include: expectation maximization, hidden Markov model, Markov chain Monte Carlo, ensemble learning, probabilistic graphical models, kernel methods and other modern machine learning paradigms. Rationales and techniques illustrated with existing implementations used in population genetics, disease association, and functional regulatory genomics studies. Instruction includes lectures and discussion of readings from primary literature. Homework and projects require implementing some of the algorithms and using existing toolkits for analysis of genomic datasets.
Terms: Spr
| Units: 3
GENE 260:
Supervised Study
Genetics graduate student lab research from first quarter to filing of candidacy. Prerequisite: consent of instructor.
Terms: Aut, Win, Spr, Sum
| Units: 1-18
| Repeatable
for credit
Instructors: ;
Altman, R. (PI);
Ashley, E. (PI);
Attardi, L. (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);
Curtis, C. (PI);
Davis, R. (PI);
Fire, A. (PI);
Ford, J. (PI);
Fordyce, P. (PI);
Francke, U. (PI);
Frydman, J. (PI);
Fuller, M. (PI);
Gitler, A. (PI);
Greely, H. (PI);
Greenleaf, W. (PI);
Hanson-Kahn, A. (PI);
Herzenberg, L. (PI);
Kay, M. (PI);
Kim, S. (PI);
Kirkegaard, K. (PI);
Kundaje, A. (PI);
Li, J. (PI);
Lipsick, J. (PI);
Montgomery, S. (PI);
Nakauchi, H. (PI);
Ormond, K. (PI);
Pringle, J. (PI);
Pritchard, J. (PI);
Quake, S. (PI);
Reijo Pera, R. (PI);
Sage, J. (PI);
Sherlock, G. (PI);
Sidow, A. (PI);
Snyder, M. (PI);
Stearns, T. (PI);
Steinmetz, L. (PI);
Tang, H. (PI);
Ting, A. (PI);
Urban, A. (PI);
Villeneuve, A. (PI);
Vollrath, D. (PI);
Winslow, M. (PI);
Campion, M. (GP);
Kanagawa, K. (GP);
Thompson, J. (GP)
GENE 274B:
A Case Based Approach to Clinical Genetics (CHPR 274B)
For genetic counseling students, graduate students in genetics, medical students, residents, and fellows. Case-based scenarios and guest expert lectures. Students learn skills in case preparation, management, and presentation, as well as content around common genetic disorders. This course is a continuation of GENE 274A, but may be taken individually with instructor permission.
Terms: Spr
| Units: 2
GENE 276:
Genetic Counseling Clinical Rotations
For genetic counseling students only. Supervised clinical experiences. May be repeated for credit. Prerequisite: GENE 275.
Terms: Aut, Win, Spr, Sum
| Units: 1-7
| Repeatable
for credit
GENE 278:
Prenatal Genetic Counseling (CHPR 278)
Internet-based course for genetic counseling students, graduate students in genetics, medical students, residents, and fellows; genetic counseling students should take this course in conjunction with their initial prenatal genetics rotation. Topics include prenatal genetic screening and diagnosis in the first and second trimesters, ultrasound, teratology, and genetic carrier screening.
Terms: Aut, Win, Spr, Sum
| Units: 1
GENE 279:
Pediatric and Adult Genetic Counseling (CHPR 279)
Internet based course for genetic counseling students, graduate students in genetics, medical students, residents, and fellows; genetic counseling students should take this course in conjunction with their initial general genetics rotation. Topics include: common genetic conditions, assessment of child development and medical history in the context of a genetic workup, the pediatric genetics medical examination, dysmorphology, introduction to laboratory genetic testing, development of a differential diagnosis, and resources for case management and family support.
Terms: Aut, Win, Spr, Sum
| Units: 1
GENE 280:
Metabolic Genetic Counseling (CHPR 280)
Internet based course for genetic counseling students, graduate students in genetics, medical students, residents, and fellows genetic counseling students should take this course in conjunction with their metabolic genetics rotation. Topics include: overview of metabolic diseases; common pathways; diagnosis, management, and treatment of metabolic disorders; and newborn screening.
Terms: Aut, Win, Spr, Sum
| Units: 1
GENE 281:
Cancer Genetic Counseling (CHPR 281)
Internet based course for genetic counseling students, graduate students in genetics, medical students, residents, and fellows; genetic counseling students should take this course in conjunction with their initial cancer genetics rotation. Topics include: cancer biology and cytogenetics; diagnosis and management of common cancer genetic syndromes¿ predictive testing; psychology of cancer genetic counseling; and topics recommended by ASCO guidelines.
Terms: Aut, Win, Spr, Sum
| Units: 1
GENE 282B:
Genetic Counseling Research Seminar
For genetic counseling students only. Lectures and facilitated discussions on research methodology for genetic counseling departmental research projects. Prerequisite: GENE 282A.
Terms: Spr
| Units: 1
GENE 283:
Genetic Counseling Research
Genetic counseling students conduct clinical research projects as required by the department for graduation. May be repeated for credit. Pre- or corequisite: GENE 282.
Terms: Aut, Win, Spr, Sum
| Units: 1-8
| Repeatable
for credit
GENE 284:
Medical Genetics Seminar (CHPR 284)
Presentation of research and cases. Students enrolling for 2 units also attend and report on external seminars. May be repeated for credit. Non-GC students: please contact the instructor when you enroll.
Terms: Aut, Win, Spr
| Units: 1-2
| Repeatable
for credit
GENE 285C:
Genetic Counseling Seminar
Year-long seminar primarily for genetic counseling students. Spring: applying therapeutic counseling approaches to the practice of genetic counseling.
Terms: Spr
| Units: 2
GENE 286:
Advanced Genetic Counseling Seminar
For genetic counseling students only. Psychosocial issues associated with genetic counseling cases are discussed through presentation of cases that students have seen throughout their training. Professional development topics will be included. Must be taken for 3 quarters. Prerequisites: GENE 285 A,B,C and 276.
Terms: Aut, Win, Spr
| Units: 2
| Repeatable
3 times
(up to 6 units total)
GENE 287:
CARDIOVASCULAR GENETICS (CHPR 287)
Internet-based course for genetic counseling students, graduate students in genetics, medical students, residents, and fellow; genetic counseling students should take this course in conjunction with their cardiovascular genetics rotation. Topics include: Basic cardiology principles, including relevant anatomy and physiology; diagnosis, management and genetic testing as it relates to common inherited cardiovascular conditions in both the pediatric and adult setting; predictive genetic testing issues specific to inherited cardiovascular conditions; psychologic issues related to sudden death conditions. This course is designed for genetic counseling students, medical students, residents, post-doctoral fellows and nurses interested in inherited cardiovascular conditions.
Terms: Aut, Win, Spr, Sum
| Units: 1
GENE 299:
Directed Reading in Genetics
Prerequisite: consent of instructor.
Terms: Aut, Win, Spr, Sum
| Units: 1-18
| Repeatable
for credit
Instructors: ;
Altman, R. (PI);
Ashley, E. (PI);
Attardi, L. (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);
Campion, M. (PI);
Cherry, J. (PI);
Cohen, S. (PI);
Curtis, C. (PI);
Davis, R. (PI);
Fire, A. (PI);
Ford, J. (PI);
Fordyce, P. (PI);
Francke, U. (PI);
Frydman, J. (PI);
Fuller, M. (PI);
Gitler, A. (PI);
Greely, H. (PI);
Greenleaf, W. (PI);
Hanson-Kahn, A. (PI);
Herzenberg, L. (PI);
Kay, M. (PI);
Kim, S. (PI);
Kirkegaard, K. (PI);
Kundaje, A. (PI);
Li, J. (PI);
Lipsick, J. (PI);
Montgomery, S. (PI);
Nakauchi, H. (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);
Stearns, T. (PI);
Steinmetz, L. (PI);
Tang, H. (PI);
Urban, A. (PI);
Villeneuve, A. (PI);
Vollrath, D. (PI);
Winslow, M. (PI);
Campion, M. (GP);
Kanagawa, K. (GP);
Thompson, J. (GP)
GENE 399:
Graduate Research
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);
Ashley, E. (PI);
Attardi, L. (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);
Curtis, C. (PI);
Davis, R. (PI);
Fire, A. (PI);
Ford, J. (PI);
Fordyce, P. (PI);
Francke, U. (PI);
Frydman, J. (PI);
Fuller, M. (PI);
Gitler, A. (PI);
Greely, H. (PI);
Greenleaf, W. (PI);
Hanson-Kahn, A. (PI);
Herzenberg, L. (PI);
Kay, M. (PI);
Kim, S. (PI);
Kirkegaard, K. (PI);
Kundaje, A. (PI);
Li, J. (PI);
Lipsick, J. (PI);
Montgomery, S. (PI);
Nakauchi, H. (PI);
Ormond, K. (PI);
Pringle, J. (PI);
Pritchard, J. (PI);
Quake, S. (PI);
Reijo Pera, R. (PI);
Sage, J. (PI);
Sherlock, G. (PI);
Sidow, A. (PI);
Snyder, M. (PI);
Stearns, T. (PI);
Steinmetz, L. (PI);
Tang, H. (PI);
Ting, A. (PI);
Urban, A. (PI);
Villeneuve, A. (PI);
Vollrath, D. (PI);
Winslow, M. (PI);
Campion, M. (GP);
Kanagawa, K. (GP);
Thompson, J. (GP)
Terms: Aut, Win, Spr, Sum
| Units: 0
| Repeatable
for credit
Instructors: ;
Altman, R. (PI);
Ashley, E. (PI);
Attardi, L. (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);
Curtis, C. (PI);
Davis, R. (PI);
Fire, A. (PI);
Ford, J. (PI);
Fordyce, P. (PI);
Francke, U. (PI);
Frydman, J. (PI);
Fuller, M. (PI);
Gitler, A. (PI);
Greely, H. (PI);
Greenleaf, W. (PI);
Hanson-Kahn, A. (PI);
Herzenberg, L. (PI);
Kay, M. (PI);
Kim, S. (PI);
Kirkegaard, K. (PI);
Kundaje, A. (PI);
Li, J. (PI);
Lipsick, J. (PI);
Montgomery, S. (PI);
Nakauchi, H. (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);
Stearns, T. (PI);
Steinmetz, L. (PI);
Tang, H. (PI);
Urban, A. (PI);
Villeneuve, A. (PI);
Vollrath, D. (PI);
Winslow, M. (PI);
Campion, M. (GP);
Kanagawa, K. (GP);
Thompson, J. (GP)
GENE 802:
TGR Dissertation
Terms: Aut, Win, Spr, Sum
| Units: 0
| Repeatable
for credit
Instructors: ;
Altman, R. (PI);
Ashley, E. (PI);
Attardi, L. (PI);
Axelrod, J. (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);
Curtis, C. (PI);
Davis, R. (PI);
Fire, A. (PI);
Ford, J. (PI);
Fordyce, P. (PI);
Francke, U. (PI);
Frydman, J. (PI);
Fuller, M. (PI);
Gitler, A. (PI);
Greely, H. (PI);
Greenleaf, W. (PI);
Hanson-Kahn, A. (PI);
Herzenberg, L. (PI);
Kay, M. (PI);
Kim, S. (PI);
Kirkegaard, K. (PI);
Kundaje, A. (PI);
Li, J. (PI);
Lipsick, J. (PI);
Montgomery, S. (PI);
Nakauchi, H. (PI);
Ormond, K. (PI);
Pringle, J. (PI);
Pritchard, J. (PI);
Quake, S. (PI);
Reijo Pera, R. (PI);
Sage, J. (PI);
Sherlock, G. (PI);
Sidow, A. (PI);
Snyder, M. (PI);
Stearns, T. (PI);
Steinmetz, L. (PI);
Tang, H. (PI);
Ting, A. (PI);
Urban, A. (PI);
Villeneuve, A. (PI);
Vollrath, D. (PI);
Wernig, M. (PI);
Winslow, M. (PI);
Campion, M. (GP);
Kanagawa, K. (GP);
Thompson, J. (GP)
