Section outline

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  • Tuesday, January 7, 2020; 1:10 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):

    • Required Reading:

      Relevant journal articles will be assigned throughout the quarter. These should be read before the corresponding class meeting. Each student will be responsible for leading discussion of one week's journal article(s).

    • Genetic Epi chapter File
    • AHA Reading File

    • Assignment:

    • Assignment 1 File

    • Final Exam: Optional narrative description

    • Final project File

    • Written Final Project Due Date: Due on 3/13 by email to all of Hashemi, Sepehr: Sepehr.Hashemi@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 3/17

  • Tuesday, January 14, 2020; 1:00 PM - 3:00 PM

    Lecture: Population Genetics, Heritability, Familiality 

    Faculty:  John Witte

    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:

    • Visscher File

    • Assignment:

    • Assignment 2 File

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

  • Tuesday, January 21, 2020; 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):

    • Required Reading:


    • History of Human Disease Genetics File

    • Assignment:

    • Assignment 3 File

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

  • Tuesday, January 28, 2020; 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
    • ArticlePresentation File

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

    • Assignment:

    • Assignment 4 File
    • MTHFR File
    • MTHFR File

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

  • Tuesday, February 4, 2020; 1:00 PM - 3:00 PM

    Lecture: GWAS (Part II)

    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:

    • Assignment 5 File

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

  • Tuesday, February 11, 2020; 1:00 PM - 3:00 PM

    Lecture: GWAS (Part III)

    Faculty: Tom Hoffmann

    Location:  Mission Hall 1407

    • Session Slides:

    • Lecture6 GWAS File
    • Lecture6 GWAS File

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

    • Assignment: Optional narrative description

    • Assignment 6 File

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

  • Tuesday, February 18, 2020; 1:00 PM - 3:00 PM

    Lecture: Epistasis, Functionality of Associations

    Faculty:  Eric Jorgenson

    Location:  Mission Hall 1407

    • Session Slides:

    • Lecture 7-Epistasis-Epigenetics-Functional Genomics File

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

    • Required Reading:

    • Assignment: Optional narrative description

    • Assignment 7 File

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

  • Tuesday, February 25, 2020; 1:00 PM - 3:00 PM

    Lecture: Viral Genomics

    Faculty:  Stephen Francis

    Location:  Mission Hall 1407

    • Session Slides:

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

    • Assignment:

    • Assignment 8 File
    • Viral Genomics File

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

  • Tuesday, March 3, 2020; 1:00 PM - 3:00 PM

    Lecture: Microbiome, G-E Interactions

    Faculty:  Iona Cheng

    Location:  Mission Hall 1407

    • Session Slides:

    • Lecture 9 File

    • Session Audio/Video Recording:

    • Bonder et al. 2016 File
    • Microbiome and cancer File

    • Final Exam: Optional narrative description

    • Final Project File

    • Written Final Project Due Date: Due on 3/13 by email to all of Hashemi, Sepehr: Sepehr.Hashemi@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 3/17

    • Assignment: Optional narrative description

  • Tuesday, March 10, 2020; 1:00 PM - 3:00 PM

    Lecture: Genetic epidemiology in diverse populations, ancestry, admixture mapping 

    Faculty:  Laura Fejerman

    Location:  Zoom only

    Zoom Link: https://ucsf.zoom.us/j/2271528558 or +1 669 900 6833 (Meeting ID: 227 152 8558)

    • Session Slides:

    • witteclassr-2020 V2 File

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

    • Required Reading:

    • Reading File

    • Assignment: Optional narrative description

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

  • Tuesday, March 17, 2020; 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:      Zoom only

    Zoom Link: https://ucsf.zoom.us/j/2271528558 or +1 669 900 6833 (Meeting ID: 227 152 8558)

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

    • Required Reading:


    • Assignment: Optional narrative description

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