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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); Baker, J. (PI); Barna, M. (PI); Bassik, M. (PI); Brown, P. (PI); Brunet, A. (PI); Bustamante, C. (PI); Calos, M. (PI); Cherry, J. (PI); Cohen, S. (PI); Fire, A. (PI); Francke, U. (PI); Fuller, M. (PI); Gitler, A. (PI); Greenleaf, W. (PI); Herzenberg, L. (PI); Kay, M. (PI); Kim, S. (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 205: Advanced Genetics

For PhD students in any of the Biosciences Departments and Programs at Stanford University. Emphasis on developing the ability to solve problems using genetic ideas and methods, to understand the nature and reliability of genetic inference, and to apply genetic reasoning to biological research. Weekly paper discussions based on original research papers that define or illustrate the ideas and techniques covered in the lecture.
Terms: Win | Units: 3
Instructors: ; Fire, A. (PI); Pringle, J. (PI); Pritchard, J. (PI); Villeneuve, A. (PI); Winslow, M. (PI)

GENE 211: Genomics

Genome evolution, organization, and function; technical, computational, and experimental approaches; hands-on experience with representative computational tools used in genome science; and a beginning working knowledge of PERL.
Terms: Win | Units: 3
Instructors: ; Cherry, J. (PI); Sherlock, G. (PI)

GENE 217: Translational Bioinformatics

(Same as BIOMEDIN 217, CS 275) Analytic, storage, and interpretive methods to optimize the transformation of genetic, genomic, and biological data into diagnostics and therapeutics for medicine. Topics: access and utility of publicly available data sources; types of genome-scale measurements in molecular biology and genomic medicine; analysis of microarray data; analysis of polymorphisms, proteomics, and protein interactions; linking genome-scale data to clinical data and phenotypes; and new questions in biomedicine using bioinformatics. Case studies. Prerequisites: programming ability at the level of CS 106A and familiarity with statistics and biology.
Terms: Win | Units: 4
Instructors: ; Butte, A. (PI); Mallory, E. (GP); Percha, B. (GP); Yancy, L. (GP)

GENE 224: Principles of Pharmacogenomics (BIOMEDIN 224)

Introduction to the relevant pharmacology, genomics, experimental methods for high-throughput measurements (sequencing, expression, genotyping), analysis methods for GWAS, chemoinformatics, and natural language processing. Review of key gene classes (cytochromes, transporters, GPCRs), key drugs for which genetics is critical (warfarin, clopidogrel, statins, NSAIDs, neuropsychiatric drugs and cancer drugs). Also reviews resources for pharmacogenomics (PharmGKB, Drugbank, CMAP, and others) as well as issues in doing clinical implementation of pharmacogenomics testing. Reading of key papers, including student presentations of this work. Problem sets; final project selected with approval of instructor. Prerequisites: two of BIO 41, BIO 42, BIO 43, BIO 44X, BIO 44Y or consent of instructor.
Terms: Win, Sum | Units: 3
Instructors: ; Altman, R. (PI); Klein, T. (PI); Costa, H. (TA)

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); Baker, J. (PI); Barna, M. (PI); Bassik, M. (PI); Brown, P. (PI); Brunet, A. (PI); Bustamante, C. (PI); Calos, M. (PI); Cherry, J. (PI); Cohen, S. (PI); Fire, A. (PI); Francke, U. (PI); Fuller, M. (PI); Gitler, A. (PI); Greenleaf, W. (PI); Herzenberg, L. (PI); Kay, M. (PI); Kim, S. (PI); Kundaje, A. (PI); Li, J. (PI); Lipsick, J. (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); Steinmetz, L. (PI); Tang, H. (PI); Villeneuve, A. (PI); Vollrath, D. (PI); Winslow, M. (PI)

GENE 274A: A Case Based Approach to Clinical Genetics

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.
Terms: Win | Units: 2
Instructors: ; Hanson-Kahn, A. (PI); Hudgins, L. (PI)

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: 4-7 | Repeatable for credit
Instructors: ; Hanson-Kahn, A. (PI); Ormond, K. (PI)

GENE 278: Prenatal Genetic Counseling

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
Instructors: ; Ormond, K. (PI)

GENE 279: Pediatric and Adult Genetic Counseling

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
Instructors: ; Hanson-Kahn, A. (PI); Ormond, K. (PI)

GENE 280: Metabolic Genetic Counseling

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
Instructors: ; Hanson-Kahn, A. (PI); Ormond, K. (PI)

GENE 281: Cancer Genetic Counseling

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
Instructors: ; Ormond, K. (PI)

GENE 282A: Genetic Counseling Research Seminar

For genetic counseling students only. Facilitated discussions on identifying a topic and mentor for genetic counseling departmental research projects.
Terms: Win | Units: 1
Instructors: ; Ormond, K. (PI)

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
Instructors: ; Hanson-Kahn, A. (PI); Ormond, K. (PI)

GENE 284: Medical Genetics Seminar

Presentation of research and cases. Students enrolling for 2 units also attend and report on external seminars. May be repeated for credit.
Terms: Aut, Win, Spr | Units: 1-2 | Repeatable for credit
Instructors: ; Hanson-Kahn, A. (PI)

GENE 285B: Genetics Counseling Seminar

Year-long seminar primarily for genetic counseling students. Winter: the impact of chronic illness and genetic disease in a developmental manner.
Terms: Win | Units: 2
Instructors: ; Ormond, K. (PI)

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)
Instructors: ; Hanson-Kahn, A. (PI); Ormond, K. (PI)

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); Baker, J. (PI); Barna, M. (PI); Brown, P. (PI); Brunet, A. (PI); Bustamante, C. (PI); Calos, M. (PI); Cherry, J. (PI); Cohen, S. (PI); Fire, A. (PI); Francke, U. (PI); Fuller, M. (PI); Gitler, A. (PI); Greenleaf, W. (PI); Herzenberg, L. (PI); Kay, M. (PI); Kim, S. (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 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); Baker, J. (PI); Barna, M. (PI); Bassik, M. (PI); Brown, P. (PI); Brunet, A. (PI); Bustamante, C. (PI); Calos, M. (PI); Cherry, J. (PI); Cohen, S. (PI); Fire, A. (PI); Francke, U. (PI); Fuller, M. (PI); Gitler, A. (PI); Greenleaf, W. (PI); Herzenberg, L. (PI); Kay, M. (PI); Kim, S. (PI); Kundaje, A. (PI); Li, J. (PI); Lipsick, J. (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); Steinmetz, L. (PI); Tang, H. (PI); Villeneuve, A. (PI); Vollrath, D. (PI); Winslow, M. (PI)

GENE 801: TGR Project

Terms: Aut, Win, Spr, Sum | Units: 0 | Repeatable for credit
Instructors: ; Altman, R. (PI); Baker, J. (PI); Barna, M. (PI); Brown, P. (PI); Brunet, A. (PI); Bustamante, C. (PI); Calos, M. (PI); Cherry, J. (PI); Cohen, S. (PI); Fire, A. (PI); Francke, U. (PI); Fuller, M. (PI); Gitler, A. (PI); Greenleaf, W. (PI); Herzenberg, L. (PI); Kay, M. (PI); Kim, S. (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 802: TGR Dissertation

Terms: Aut, Win, Spr, Sum | Units: 0 | Repeatable for credit
Instructors: ; Altman, R. (PI); Axelrod, J. (PI); Baker, J. (PI); Barna, M. (PI); Bassik, M. (PI); Brown, P. (PI); Brunet, A. (PI); Bustamante, C. (PI); Calos, M. (PI); Cherry, J. (PI); Cohen, S. (PI); Fire, A. (PI); Francke, U. (PI); Fuller, M. (PI); Gitler, A. (PI); Greenleaf, W. (PI); Herzenberg, L. (PI); Kay, M. (PI); Kim, S. (PI); Kundaje, A. (PI); Li, J. (PI); Lipsick, J. (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); Steinmetz, L. (PI); Tang, H. (PI); Villeneuve, A. (PI); Vollrath, D. (PI); Wernig, M. (PI); Winslow, M. (PI); van de Rijn, M. (PI)
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