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Syllabus

Molecular and Genetic Epidemiology I EPI217

Date/Time Activity Topic/Content Faculty Locations
Tues 1/5/2010
1:15 PM-2:45 PM		Lecture

Introduction: Is the Disease Genetic?

Human genetics; Using observational information to assess whether a phenotype appears to have a genetic basis.

Note/Slide Files: Lecture_1_2010.ppt (3479 KB) syllabus2010.doc (76 KB)

Assignment Files: Assignment_1_2010.doc (32 KB)

Assignment Due Date: Assignment 1 due 1/11 at noon

J WitteCB 6704
Tues 1/12/2010
1:15 PM-2:45 PM		Lecture

Overview of Fine Mapping and Testing

Linkage, admixture, association, genetic testing.

Required Reading:

  1. Burton, Lancet 2005
J WitteCB 6704
Tues 1/19/2010
1:15 PM-2:45 PM		Lecture

Molecular and Genetic Measures

Nucleic acid amplification; restriction enzymes; microsatellite markers; SNPs; high throughput genotyping; microarrays

Required Reading:

  1. Attia et al., JAMA, January 7, 2009—Vol 301, No. 1

Note/Slide Files: Lecture 3 2010 First half new.ppt (4172 KB) Lecture 3 2010 second half new.ppt (4278 KB)

Assignment Files: Assignment_2_2010.doc (35 KB)

Assignment Due Date: Assignment 2 due 1/25 at noon

Dataset Files: MTHFR.dta (38 KB)

J WiemelsCB 6704
Tues 1/26/2010
1:15 PM-2:45 PM		Lecture

Genome-Wide Studies: Linkage

Searching for disease-causing genes by positional cloning; linkage analysis.

Required Reading:

  1. Teare and Barrett, Lancet 2005; 366: 1036–44

Note/Slide Files: Lecture4.ppt (2310 KB)

E JorgensonCB 6704
Tues 2/2/2010
1:15 PM-2:45 PM		Lecture

Association Studies: Direct

Case-control studies focusing on potential causative variants for disease

Required Reading:

  1. Cordell and Clayton, Lancet 2005; 366: 1121–31

Note/Slide Files: Lectures 5_2010.ppt (4255 KB)

Assignment Files: Assignment_3_2010.doc (40 KB)

Assignment Due Date: Assignment 3 due 2/8 at noon

Dataset Files: MTHFR_subset.dta (5 KB)

J WitteCB 6704
Tues 2/9/2010
1:15 PM-2:45 PM		Lecture

Association Studies: Indirect

Case-control studies incorporating linkage disequilibrium, genome-wide association studies

Required Reading:

  1. Palmer & Cardon, Lancet 2005; 366: 1223–34

Note/Slide Files: Lecture 6 2010.ppt (2125 KB)

J WitteCB 6704
Tues 2/16/2010
1:15 PM-2:45 PM		Lecture

Admixture and Stratification

Controlling for confounding by genetic ancestry; Admixture.

Required Reading:

  1. Attia et al., JAMA, January 14, 2009—Vol 301, No. 2

Note/Slide Files: Lecture_7.ppt (5665 KB)

Assignment Files: Assignment_4_2010.doc (36 KB)

Assignment Due Date: Assignment 4 due 2/22 at noon

Dataset Files: MTHFRcase_control.dta (31 KB)

N RischCB 6704
Tues 2/23/2010
1:15 PM-2:45 PM		Lecture

Pharmacogenomics

Genetic basis for variability in drug response/metabolism; gene-drug interaction; future of drug therapy.

Required Reading:

  1. Attia, JAMA, January 21, 2009—Vol 301, No. 3

Note/Slide Files: Lecture_8.ppt (6702 KB)

E JorgensonCB 6704
Tues 3/2/2010
1:15 PM-2:45 PM		Lecture

Genetic Testing & Ethical Issues

Policy considerations of new diagnostic tests; screening; ethical issues.

Required Reading:

  1. Smith et al., Lancet 2005; 366: 1484–98

Note/Slide Files: Lecture_9.ppt (702 KB)

Assignment:
Before Dr. Lo's lecture, please read and comment on the genomic sequencing vignette in his ethics blog, at:
http://ctsi.ucsf.edu/blogs/ethics

Final Exam Files: Final_Project-1.doc (29 KB)

Final Exam Due Date: Final Project Due 3/8 at noon

B LoCB 6704
Tues 3/9/2010
1:15 PM-2:45 PM		Lecture

Putting it all Together: Incorporating Molecular and Genetic Measures into Your Research

Sample collection, processing, and storage; resources available at UCSF; examples from final projects.

Note/Slide Files: lecture 10.ppt (374 KB)

J WitteCB 6704