Section outline

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  • Tuesday, January 9, 2018; 1:00 PM - 3:00 PM

    Lecture: Introduction: The Big Picture

    The process of genetic epidemiology; general approaches to assess the genetic basis of disease.

    Faculty:  John Witte

    Location:      Mission Hall 1407

    • Session Slides:

    • Lecture #1 File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to a group in Registered Students Only

    • Required Reading:

      (Required Reading to be completed before lecture always.)

      Chapter 1 of Genetic Epidemiology: Methods and Applications, by Melissa A. Austin. CABI, 2013. ISBN: 978-1780641812.

      Books may be purchased either through the publisher or a variety of commercial venues (e.g., Amazon.com), where you can also read the beginning of the first chapter.

    • Assignment:

    • Assignment #1 File

    • Final Exam: Optional narrative description

    • Written Final Project Due Date: Due on 3/16 by email to all of Travis Meyers <Travis.Meyers@ucsf.edu>, Thomas Hoffmann <hoffmannt@humgen.ucsf.edu>, and John Witte <John.Witte@ucsf.edu>

      Also, Brief Presentation of Project in the Final Class on 3/20

  • Tuesday, January 16, 2018; 1:00 PM - 3:00 PM

    Lecture: Population Genetics, Modeling Genetic Inheritance, Mendel's laws

    Faculty:  Iona Cheng

    Location:      Mission Hall 1407

    • Session Slides:

    • Lecture 2 File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to a group in Registered Students Only

    • Required Reading:

      Austin Chapter 2

    • Assignment:

    • Assignment 2 File

    • Assignment Answer Key (Access restricted to registered students):

  • Tuesday, January 23, 2018; 1:00 PM - 3:00 PM

    Lecture: Association Studies

    Faculty:  John Witte

    Location:  Mission Hall 1407

    • Session Slides:

    • Lecture 3 File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to a group in Registered Students Only

    • Required Reading:

      Austin Chapters 3 and 5

    • Assignment:

    • Assignment 3 File

    • Assignment Answer Key (Access restricted to registered students):

    • Assignment 2 Answer Key File

  • Tuesday, January 30, 2018; 1:00 PM - 3:00 PM

    Lecture: Genome-wide Association Studies (GWAS)

    Introduction to genome-wide association studies (GWAS): study design, array design, and initial analysis

    Faculty:  Thomas Hoffmann

    Location:      Mission Hall 1407

    • Session Slides:

    • Lecture4 GWAS File
    • Lecture4 GWAS File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to a group in Registered Students Only

    • Assignment:

    • Assignment 4 clean File
    • ldl File

    • Assignment Answer Key (Access restricted to registered students):

    • Assignment 3 Answers File

  • Tuesday, February 6, 2018; 1:00 PM - 3:00 PM

    Lecture: GWAS (Continued)

    Imputation, etc.

    Faculty:  Thomas Hoffmann

    Location:      Mission Hall 1407

    • Session Slides:

    • Lecture5 GWAS File
    • Lecture5 GWAS File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Assignment: NOTE: You do not need to do the heritability question (e.g., of your trait in the UK Biobank), as we did not make it to covering that material in class.

    • Assignment 5 File

    • Assignment Answer Key (Access restricted to registered students):

    • Assignment 4 Answers File

  • Tuesday, February 13, 2018; 1:00 PM - 3:00 PM

    Lecture: GWAS (Still continued)

    Faculty: Tom Hoffmann

    Location:  Mission Hall 1407

    • Session Slides:

    • Lecture6 GWAS File
    • Lecture6 GWAS File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to a group in Registered Students Only

    • Assignment: Optional narrative description

    • Assignment 6 File

    • Assignment Answer Key (Access restricted to registered students):

    • Assignment 5 Answers File

  • Tuesday, February 20, 2018; 1:00 PM - 3:00 PM

    Lecture: Admixture Mapping

    Faculty:  Laura Fejerman

    Location:  Mission Hall 1407

    • Session Slides:

    • Week 7 Presentation File
    • Week 7 Presentation File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to a group in Registered Students Only

    • Required Reading:

      Austin Chapter 6.

    • Assignment: Optional narrative description

    • Assignment 7 File

    • Assignment Answer Key (Access restricted to registered students):

    • Assignment 6 Answers File

  • Tuesday, February 27, 2018; 1:00 PM - 3:00 PM

    Lecture: Non-mendelian Genetics

    Mitochondrial (MT); de novo; parent-of-origin; methylation

    Faculty:  Eric Jorgenson

    Location:  Mission Hall 1407

    • Session Slides:

    • Lecture 8-Non-Mendelian Genetics File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to Registered Students Only

    • Assignment:

    • Assignment 8 File
    • Assignment 8 worksheet File
    • Asthma File

    • Assignment Answer Key (Access restricted to registered students):

    • Assignment 7 Answers File

  • Tuesday, March 6, 2018; 1:00 PM - 3:00 PM

    Lecture: Next Generation Sequencing

    Faculty:  Eric Jorgenson

    Location:  Mission Hall 1407

    • Session Slides:

    • Lecture 9 Next Gen Sequencing File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to Registered Students Only

    • Final Exam: Optional narrative description

    • Final project File

    • Written Final Project Due Date: Due by noon 3/16 by email to all of Travis Meyers <Travis.Meyers@ucsf.edu>, Thomas Hoffmann <hoffmannt@humgen.ucsf.edu>, and John Witte <wittej@humgen.ucsf.edu>

      Also, Brief Presentation of Project in the Final Class on 3/20

    • Assignment: Optional narrative description

    • Assignment 9 File
    • Genetic Epi Chapter File

  • Tuesday, March 13, 2018; 1:00 PM - 3:00 PM

    Lecture: Gene-Environment Interactions, Rare Variants, Pleiotropy

    Faculty:  John Witte

    Location:  Mission Hall 1407

    • Session Slides:

    • Lecture 10 File

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to a group in Registered Students Only

    • Assignment: Optional narrative description

    • Assignment 10 File

  • Tuesday, March 20, 2018; 1:00 PM - 3:00 PM

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

    Final Project Presentations.

    Faculty:  John Witte, Tom Hoffmann

    Location:      Mission Hall 1407

    • Session Audio/Video Recording (Access restricted to registered students):

    • Watch URL
      Not available unless: You belong to a group in Registered Students Only