Section outline

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  • Thursday, September 15, 2022; 3:30 PM - 5:00 PM

    Course Introduction; Study Design
         Distinction between designs where the unit of observation is a group of individuals vs. the individual; ecologic fallacy; types of studies with observations on the individual; cohort study as gold standard of observational designs; concept of study base linking cohort, cross-sectional and case-control designs; and design of observational research to emulate a target randomized trial.

    Faculty:  Jeffrey Martin and Ann Schwartz

    Location: Zoom

    • Course Introduction:

    • Course Introduction EPI 203 File
    • Course Introduction EPI 203 Video File

    • Lecture Slides:

    • Study Design 2022 File

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

    • Watch 2022 Media Resource
      Not available unless: You belong to a group in Registered Students Only

    • Large Group Discussion (Access restricted to registered students): Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Part 1 Media Resource
      Not available unless: You belong to a group in Registered Students Only
    • Watch 2022 Part 2 Media Resource
      Not available unless: You belong to a group in Registered Students Only

    • Recommended Reading:

    •  S & N: Ch. 1, p. 3 – 33.
    • Wachholder, S. Selection of controls in case-control studies. Am J Epidemiol 135:1019 – 1028, 1992. Focus on “Study Base Principle” p. 1021 - 1024. File
      Not available unless: Your ID number contains 02

    • Optional Reading:

    • Vandenbroucke JP. Prospective vs retrospective: What's in a name? BMJ 302: 249-250, 1991 File
      Not available unless: Your ID number contains 02
    • Vandenbroucke JP and Pearce N. Case control studies: Basic Concepts. International Journal of Epidemiology 41: 1480-1489, 2012 File
      Not available unless: Your ID number contains 02
    • Hernan MA and Robins JM. Using big data to emulate a randomized trial. American Journal of Epidemiology 183:758-764, 2016 File
      Not available unless: Your ID number contains 02
    • Bray F. and Parkin M. Ecological Studies. In Ahrens W. and Pigeot I. Handbook of Epidemiology. Springer Reference. 2nd Edition. 2013. File
      Not available unless: Your ID number contains 02

    • Assignment:  Problem Set 1

    • Problem Set 1 Study Design 2022 (WORD version) File
    • EPI203 U.S. STUDENTS Instructions for Submitting Completed Problem Sets (2022) File

    • Assignment Due Date:  September 20, 2022 at the beginning of Small Group

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

    • Problem Set 1 Study Design Answer Key 2022 File
    • Problem Set 1 Study Design Answer Key 2022 File
    • Problem Set 1 Study Design Answer Key 2022 File

  • Monday, September 19, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

      Location (Access restricted to registered students):  Zoom

  • Tuesday, September 20, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty: Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

    • EPI 203 Small Group Assignment 2022 File
      Not available unless: You belong to a group in Registered Students Only

  • Thursday, September 22, 2022; 3:30 PM - 5:00 PM

    Measures of Disease Occurrence I

    Prevalence vs. incidence; the three elements in measuring disease incidence; the concept of a rate; cumulative incidence vs. person-time incidence; concepts of survival analysis—failure time and censoring; calculating cumulative incidence—Kaplan Meier and life-table methods; and assumptions for valid estimates of cumulative incidence.

    Faculty:  Ann Schwartz

    Location: Zoom

    • Lecture Slides:

    • Disease Occurrence I 2022 File

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

    • Watch 2022 URL
      Not available unless: You belong to a group in Registered Students Only

    • Large Group Discussion (Access restricted to registered students): Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

    •   S & N: Ch. 2

    • Tapia Granados JA. On the terminology and dimensions of incidence. J Clin Epi 50:891-897, 1997. File
      Not available unless: Your ID number contains 02

    • Optional Reading:

    • Kaplan EL and Meier P. Nonparametric estimation from incomplete observations. J. American Stat. Assoc. 282: 457-481, 1958 File
      Not available unless: Your ID number contains 02
    • Rich JT et al. A practical guide to understanding Kaplan-Meier curves. Otolaryngol. Head Neck Surg. 143:331-336, 2010. File
      Not available unless: Your ID number contains 02
    • Rothman K. Measuring disease occurrence and causal effects. In: Epidemiology: An Introduction. Oxford Press, 2012. pgs:pg 38-56. File
      Not available unless: Your ID number contains 02

    • Assignment:  Problem Set 2  (Note: If you are unable to view the graphs in questions 2 and 3 in the MS Word version of this problem set, please use the PDF version.)

    • Problem Set 2 Disease Occurrence I 2022 (WORD version) File
    • Problem Set 2 Disease Occurrence I 2022 (PDF version) File
    • Epi203survival File
    • Summary of basic Stata survival analysis commands File

    • Assignment Due Date:  September 27, 2022 at the beginning of Small Group Discussion

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

    • Problem Set 2 Disease Occurrence I Answer Key 2022 File
    • Problem Set 2 Disease Occurrence I Answer Key 2022 File
    • Problem Set 2 Disease Occurrence I Answer Key 2022 File

  • Monday, September 26, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    LLocation (Access restricted to registered students):  Zoom

  • Tuesday, September 27, 2022 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty: Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Tuesday, September 27, 2022; 3:15 PM - 4:15 PM (Times and dates for Uganda or Brazil sessions may differ)

    Journal Club

    Application of concepts learned in the course to date in the critical dissection of an article in the applied literature

    Faculty:   Vivian Avelino-Silva, Trisha Hue, Kerstin Kolodzie; Jeff Martin, and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): MH-2108, MH-1400, MH-1406

    • Required Reading:

    • Ondrusova and Ondrus. Epidemiology and treatment delay in testicular cancer patients: a retrospective study. Int Urol Nephrol 40:143-148, 2008 File
      Not available unless: Your ID number contains 02
    • Journal Club Guide to Reviewing an Article File

    • Optional Reading:

    • Rothman K. Writing for Epidemiology. Epidemiology 9:333-337, 1998. File
      Not available unless: Your ID number contains 02
    • Gopen GD and Swan JA. The science of scientific writing. American Scientist 78:550-558, 1990. File
      Not available unless: Your ID number contains 02
    • Writing a Manuscript Template File

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

    • Journal Club 1 Discussion KEY File

  • Thursday, September 29, 2022; 3:30 PM - 5:00 PM

    Measures of Disease Occurrence II
    Person-time incidence rates; rate is not a proportion; average vs instantaneous incidence rates; person-time based on individual-level vs group-level data; unit of person-time in denominator does not matter; uses of rates; stratified person-time exposure in cohort studies; relationship between incidence rate and cumulative incidence via the exponential formula; use of rates in view of competing events; and the Aalen-Johansen estimator of cumulative incidence. 

    Faculty:  Ann Schwartz

    Location: Zoom

    • Prospectus:

    • Announcements in Preparation for Week 3 File

    • Lecture Slides:

    • Disease Occurrence II 2022 File

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

    • Watch 2022 URL
      Not available unless: You belong to a group in Registered Students Only

    • Large Group Discussion (Access restricted to registered students): Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

    •   S & N: Ch. 2

    • Satagopan et al. A note on competing risks in survival data analysis. Brit J Cancer 91:1229-1235, 2004. File
      Not available unless: Your ID number contains 02

    • Optional Reading:

    • Vandenbroucke JP and Pearce N. Incidence rates in dynamic populations IJE 41: 1472-1479, 2012. File
      Not available unless: Your ID number contains 02
    • Tager, IB. Outcomes in cohort studies. Epidemiol Rev 20:15-28, 1998. File
      Not available unless: Your ID number contains 02
    • Grunkemeier et al. Actual and actuarial probabilities of competing risks: Apples and lemons. Ann Thoracic Surg 83:1586-1592, 2007. File
      Not available unless: Your ID number contains 02
    • Koller et al. Competing risks and the clinical community. Statistics in Medicine 31:1089-1097, 2012. File
      Not available unless: Your ID number contains 02

    • Assignment: Problem Set 3

    • Problem Set 3 Disease Occurrence II 2022 File
    • bccarecurrence File

    • Assignment Due Date: October 4, 2022 at the beginning of Small Group Discussion

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

    • Problem Set 3 Disease Occurrence II Answer Key 2022 File
    • Problem Set 3 Disease Occurrence II Answer Key 2022 File
    • Problem Set 3 Disease Occurrence II Answer Key 2022 File

  • Monday, October 3, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    Location (Access restricted to registered students):  Zoom

  • Tuesday October 4, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty: Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Thursday, October 6, 2022; 3:30 PM - 5:00 PM

    Measures of Disease Association I

    Measures of association in cross-sectional and cohort studies; 2 x  2 tables; prevalence ratio and prevalence odds ratio; advantages and disadvantages of odds ratios; risk, rate, and hazard ratios; difference vs ratio measures; describing measures of association

    Faculty:  Ann Schwartz and Richard Wang

    Location: Zoom

    • Lecture Slides:

    • Disease Association I 2022 File

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

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Large Group Discussion (Access restricted to registered students): Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

    •   S & N: Ch. 3, except sections 3.2.2 and 3.4.2 (i.e., skip attributable risk); Appendix A3

    • Optional Reading:

    • Cummings P. The relative merits of risk ratios and odds ratios. Arch Pediatr Adolesc Med. 163:438-445, 2009. File
      Not available unless: Your ID number contains 02
    • Norton et al Computing adjusted risk ratios and risk differences in Stata Stata Journal 13: 492–509, 2013 File
      Not available unless: Your ID number contains 02
    • Poole C. On the origin of risk relativism. Epidemiology 21:3-9, 2010. File
      Not available unless: Your ID number contains 02
    • Andersen et al. Competing risks in epidemiology. Internation Journal of Epidemiology 41:861-870, 2012. File
      Not available unless: Your ID number contains 02
    • Bland JM and Altman DG. The logrank test. BMJ 328:1073, 2004. File
      Not available unless: Your ID number contains 02
    • Hernan M. The hazards of hazard ratios. Epidemiology 21:13-25, 2010 File
      Not available unless: Your ID number contains 02
    • Stensrud et al. Limitations of hazard ratios in clinical trials. European Heart Journal 40:1378-1383, 2019 File
      Not available unless: Your ID number contains 02
    • Greenland Noncollapsibility confounding and sparse-data bias Part 1 JCE 2021 File
      Not available unless: Your ID number contains 02
    • Greenland Noncollapsibility confounding and sparse-data bias Part 2 JCE 2021 File
      Not available unless: Your ID number contains 02

    • Assignment: Problem Set 4

    • Problem Set 4 Disease Association I 2022 File

    • Assignment Due Date:  October 11, 2022 at the beginning of Small Group Discussion

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

    • Problem Set 4 Disease Association I Answer Key 2022 File
    • Problem Set 4 Disease Association I Answer Key 2022 File
    • Problem Set 4 Disease Association I Answer Key 2022 File

  • Monday, October 10, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    Location (Access restricted to registered students):  Zoom

  • Tuesday, October 11, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty:  Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Tuesday, October 11, 2022; 3:15 PM - 4:15 PM (Times and dates for Uganda or Brazil sessions may differ)

    Journal Club

    Application of concepts learned in the course to date in the critical dissection of an article in the applied literature

    Faculty:   Vivian Avelino-Silva, Trisha Hue, Kerstin Kolodzie; Jeff Martin, and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Remain in same Zoom URL or physical room as preceding Small Group

    • Required Reading:

    • Grosso et al. Oral bisphosphonates and risk of atrial fibrillation and flutter in women: A self-controlled case-series safety analysis. PLoS ONE 4:e4720, 2009. File
      Not available unless: Your ID number contains 02

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

    • Journal Club 2 Discussion KEY File

  • Thursday, October 13, 2022; 3:30 PM - 5:00 PM

    Measures of Disease Association II and Measures of Attribution

    Measures of association in a case-control study; equivalence of odds ratio to other measures of association depending on control sampling: case-cohort, incidence density, or prevalent; sufficient-component cause model of disease; measures of attribution: attribution among exposed vs attribution in an overall population.

    Faculty:  Ann Schwartz

    Location: Zoom

    • Lecture Slides:

    • Disease Association II and Attribution 2022 File

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

    • Watch 2022 URL
      Not available unless: You belong to a group in Registered Students Only

    • Large Group Discussion (Access restricted to registered students): Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

    • S & N: Ch. 3, including sections 3.2.2 and 3.4.2; Appendix A4 and A5

    • Optional Reading:

    • Greenland S and Robins JM. Conceptual problems in the definition and interpretation of attributable fractions. American Journal of Epidemiology 128:1185-1197, 1988. File
      Not available unless: Your ID number contains 02
    • Rockhill B, Newman B, and Weinberg C. Use and misuse of population attributable fractions. American Journal of Public Health 88:15-19, 1998. File
      Not available unless: Your ID number contains 02
    • Rothman KJ. Causes. Am J Epi 104:587-592, 1976. File
      Not available unless: Your ID number contains 02
    • Rothman KJ and Greenland S. Causation and causal inference in epidemiology. AJPH 95:5145-5150, 2005. File
      Not available unless: Your ID number contains 02

    • Assignment: Problem Set 5

    • Problem Set 5 Disease Association II 2022 File
    • fracturegenotype File

    • Assignment Due Date:  October 18, 2022 at the beginning of Small Group Discussion

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

    • Problem Set 5 Disease Association II Answer Key 2022 File
    • Problem Set 5 Disease Association II Answer Key 2022 File
    • Problem Set 5 Disease Association II Answer Key 2022 File

  • Monday, October 17, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    Location (Access restricted to registered students):  Zoom

  • Tuesday, October 18, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty: Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Thursday, October 20, 2022; 3:30 PM - 5:00 PM

    Selection Bias

    Internal vs. external validity; definition and classification of bias; distinguishing bias from random error; spotting and minimizing selection bias in descriptive, cross-sectional, case-control, and longitudinal (e.g., cohorts or trials) studies

    Faculty:  Jeffrey Martin

    Location: Zoom

    • Prospectus:

    • Announcements Week 6 File

    • Lecture Slides:

    • Selection Bias 2022 File

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

    • Large Group Discussion (Access restricted to registered students): 

      Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

    • S & N:  Ch. 4, sections 4.1 - 4.2 (p. 127 - 135) and sections 4.4 - 4.4.2 (p. 153 - 159)

    • Optional Reading:

    • Stovitz SD et al. Paediatric obesity appears to lower the risk of diabetes if selection bias is ignored. J Epidemiol Community Health 72:302–308, 2018 File
      Not available unless: Your ID number contains 02
    • Hernán MA, Hernández-Díaz S, Robins JM. A structural approach to selection bias. Epidemiology. 15:615-25, 2004. File
      Not available unless: Your ID number contains 02
    • Robinson et al. Systematic review identifies number of stategies important for retaining study participants. J Clin Epi 60:757-765, 2007. File
      Not available unless: Your ID number contains 02
    • Cole et al. Illustrating bias due to conditioning on a collider. International Journal of Epidemiology 39:417-420, 2010. File
      Not available unless: Your ID number contains 02
    • Schwartz S et al. Toward a clarification of the taxonomy of bias in Epidemiology textbooks. Epidemiology 26:216-222, 2015. File
      Not available unless: Your ID number contains 02
    • Hernan MA. Selection bias without colliders Am J Epidemiol. 185:1048–1050, 2017. File
      Not available unless: Your ID number contains 02
    • Westreich et al Target validty and hierarchy of study designs American J Epi 2019 File
      Not available unless: Your ID number contains 02
    • Smith L Selection mechanisms and their consequences: Understanding and addressing selection bias Curr Epi Rep 2020 File
      Not available unless: Your ID number contains 02

    • Assignment: Problem Set 6

    • Problem Set 6 Selection Bias 2021 File

    • Assignment Due Date:  October 25, 2022 at the beginning of Small Group Discussion

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

    • Problem Set 6 Selection Bias Answer Key 2022 File
    • Problem Set 6 Selection Bias Answer Key 2022 File
    • Problem Set 6 Selection Bias Answer Key 2022 File

  • Monday, October 24, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    LLocation (Access restricted to registered students):  Zoom

  • Tuesday, October 25, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty: Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Tuesday, October 25, 2022; 3:15 PM - 4:15 PM (Times and dates for Uganda or Brazil sessions may differ)

    Journal Club

    Application of concepts learned in the course to date in the critical dissection of an article in the applied literature

    Faculty:   Vivian Avelino-Silva, Trisha Hue, Kerstin Kolodzie; Jeff Martin, and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Remain in same Zoom URL or physical room as preceding Small Group

    • Required Reading:

    • Lane et al. Wnt signaling antagonists are potential prognostic biomarkers for the progression of radiographic hip osteoarthritis in elderly Caucasian women. Arthritis and Rheumatism 56:3319–3325, 2007. File
      Not available unless: Your ID number contains 02

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

    • Journal Club 3 Discussion Key File

  • Thursday, October 27, 2022; 3:30 PM - 5:00 PM

    Understanding Measurement: Aspects of Reproducibility and Validity

    Distinguishing reproducibility from validity; how reproducibility influences validity; methods of characterizing reproducibility of measurements (within-subject standard deviation, intraclass correlation coefficient, coefficient of variation); methods of assessment of validity in the presence and absence of gold standards

    Faculty:  Jeffrey Martin

    Location: Zoom

    • Lecture Slides:

    • Measurement Reproducibility Validity 2022 File

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

    • Watch_Understanding_Measurement 2022 URL
      Not available unless: You belong to a group in Registered Students Only
    • Large Group Discussion (Access restricted to registered students): 

      Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Assignment: Problem Set 7  (see this site https://medium.com/lets-excel/microsoft-excel-how-to-disable-protected-view-in-ms-excel-ae01a0c5405b  if trouble opening the file)

    • Problem Set 7 Understanding Measurement 2022 File

    • Recommended Reading:

    • Measurement Summary Chart File

    • S & N: Chapter 8 : Sections 8.1 - 8.2 (p. 349 - 354), sections 8.3.1 - 8.3.3 (p. 354 - 364), and section 8.4.2 (p. 389 - 400)

    • Bland and Altman. Measurement error. BMJ 313:744, 1996. File
      Not available unless: Your ID number contains 02
    • Bland and Altman. Measurement error proportional to the mean. BMJ 313:106, 1996. File
      Not available unless: Your ID number contains 02
    • Bland and Altman. Measurement error and correlation coefficients. BMJ 313:41-42, 1996 File
      Not available unless: Your ID number contains 02
    • Bland and Altman. Statistical methods for assessing agreement between two methods of clinical measurement. Lancet 307-310, 1986. File
      Not available unless: Your ID number contains 02
    • Bland and Altman. Applying the right statistics: analyses of measurement studies. Ultrasound Obstet Gynecol 22: 85-93, 2003. File
      Not available unless: Your ID number contains 02
    • Streiner DL, Norman GR and Cairney J (2015), Health Measurement Scales: A practical guide to their development and use. 5th ed. Oxford, U.K.: Oxford University Press. Chapter 10: 227-240 File
      Not available unless: Your ID number contains 02

    • Optional Reading:

    • Weir, JP. Quantifying test-retest reliability using the intraclass correlation coefficient and the SEM. JSCR 19:231-240, 2005. File
      Not available unless: Your ID number contains 02
    • Tips for MS Excel File

    • Assignment Due Date:  November 1, 2022 at the beginning of Small Group Section

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

    • Problem Set 7 Understanding Measurement Answer Key 2022 File
    • Problem Set 7 Understanding Measurement Answer Key 2022 File
    • Problem Set 7 Understanding Measurement Answer Key 2022 File

  • Monday, October 31, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    LLocation (Access restricted to registered students):  Zoom

  • Tuesday, November 1, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty: Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Thursday, November 3, 2022; 3:30 PM - 5:00 PM

    Measurement Bias
    Differential vs non-differential misclassification; independent vs dependent errors;  influence (magnitude and direction of bias) of differential vs. non-differential and independent vs dependent misclassification of exposure, outcome, and confounding variables

    Faculty:  Amanda Irish and Jeffrey Martin

    Location: Zoom

    • Lecture Slides:

    • Measurement Bias 2022 File

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

    • Watch 2022 URL
      Not available unless: You belong to a group in Registered Students Only

    • Large Group Discussion (Access restricted to registered students):
      Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

    • S & N:  Ch. 4: sections 4.3-4.3.3 (P. 135-152)

    • van Smeden M, Lash TL and Groenwold RHH Five Myths About Measurement Error Int J Epi 2020 File
      Not available unless: Your ID number contains 02

    • Optional Reading:

    • Brooks et al. The impact of joint misclassification of exposures and outcomes on the results of epidemiologic research. Current Epidemiology Reports 5:166-174, 2018. File
      Not available unless: Your ID number contains 02
    • Jurek, AM et al. Proper interpretation of non-differential misclassification effects. J Epid 34:680-687, 2005. File
      Not available unless: Your ID number contains 02
    • Berry et al. Impact of misclassification of in vitro fertilization in studies of folic acid and twinning: modelling using population based Swedish vital records. BMJ 1-3, 2004. File
      Not available unless: Your ID number contains 02
    • Hernan and Cole. Causal diagrams and measurement bias. AJE 170:959-962, 2009. File
      Not available unless: Your ID number contains 02
    • Kristensen P. Bias from nondifferential but dependent misclassification of exposure and outcome. Epidemiology 3:210-215, 1992. File
      Not available unless: Your ID number contains 02
    • Orsini et al. A tool for sensitivity analysis of epi studies Stata Jrnl 8:29-48, 2008. File
      Not available unless: Your ID number contains 02
    • Fox M et al. Excel spreadsheet calculator from Chapter 6 of Applying Quantitative Bias Analysis to Epidemiologic Data. Springer 2009. File
      Not available unless: Your ID number contains 02
    • Lash et al. Good practices for quantitative bias analysis Int J Epidemiology 43:1969-1985, 2014. File
      Not available unless: Your ID number contains 02

    • Assignment: Problem Set 8

    • Problem Set 8 Measurement Bias 2022 File

    • Assignment Due Date:  November 8, 2022 at the beginning of Small Group Section

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

    • Problem Set 8 Measurement Bias Answer Key 2022 File
    • Problem Set 8 Measurement Bias Answer Key 2022 File
    • Problem Set 8 Measurement Bias Answer Key 2022 File

  • Monday, November 7, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    LLocation (Access restricted to registered students):  Zoom

  • Tuesday, November 8, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty:  Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Tuesday, November 8, 2022; 3:15 PM - 4:15 PM (Times and dates for Uganda or Brazil sessions may differ)

    Journal Club

    Application of concepts learned in the course to date in the critical dissection of an article in the applied literature

    Faculty:   Vivian Avelino-Silva, Trisha Hue, Kerstin Kolodzie; Jeff Martin, and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Remain in same Zoom URL or physical room as preceding Small Group

    • Required Reading:

    • Rookus M and van Leeuwen FE. Induced abortion and risk for breast cancer. Reporting (recall) bias in a Dutch case-control stduy. Journal of the National Cancer Institute 88:1759-1764, 1996. File
      Not available unless: Your ID number contains 02

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

    • Journal Club 4 Discussion KEY File

  • Thursday, November 10, 2022; 3:30 PM - 5:00 PM

    Confounding and Interaction I: General Principles

    Definition and manifestations of confounding; use of counterfactual model to conceptualize origins of confounding; confounding vs confounders; use of directed acyclic graphs (DAGs) to demonstrate and identify confounding and other bias (selection and measurement); nuisance causal pathways; importance of defining the research question and understanding the biological system to prevent confounding

    Faculty:  Jeffrey Martin

    Location: Zoom

    • Lecture Slides:

    • Confounding I 2022 File

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

    • Watch 2022 URL
      Not available unless: You belong to a group in Registered Students Only

    • Large Group Discussion (Access restricted to registered students):
      Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

    •   S & N: Ch. 5 except section 5.4

    • Notes on reading for Confounding and Interaction I File
    • Digitale et al. Tutorial on directed acyclic graphs. J Clin Epi 2021 File
      Not available unless: Your ID number contains 02
    • Hernan MA et al. Causal knowledge as a prerequisite for confounder evaluation. AJE 156:176-184, 2002. File
      Not available unless: Your ID number contains 02
    • dagitty.net, an open source browser-based environment for creating, editing, and analyzing directed acyclic graphs. URL
    • DAGitty dot net v3.0 instructions File

    • Optional Reading:

    • Greenland Pearl Robins. Causal diagrams for epidemiologic research. Epidemiology 10:37-48,1999. File
      Not available unless: Your ID number contains 02
    • Cole S, Hernan M. Fallibility in estimating direct effects. IJE 31:163-165, 2002. File
      Not available unless: Your ID number contains 02
    • Maldonado G and Greenland S. Estimating causal effects. Int J Epi 31:422-429, 2002. File
      Not available unless: Your ID number contains 02
    • Richiardi L et al. Mediation analysis in epidemiology IJE 42:1511-1519, 2013 File
      Not available unless: Your ID number contains 02
    • Suzuki E et al. Causal Diagrams: Pitfalls and Tips. J of Epi 30:153-162, 2020. File
      Not available unless: Your ID number contains 02

    • Assignment: Problem Set 9

    • Problem Set 9 Confounding and Interaction I 2022 File

    • Assignment Due Date:  November 15, 2022 at the beginning of Small Group Section

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

    • Problem Set 9 Confounding and Interaction I Answer Key 2022 File
    • Problem Set 9 Confounding and Interaction I Answer Key 2022 File
    • Problem Set 9 Confounding and Interaction I Answer Key 2022 File

  • Monday, November 14, 2022; 1:00PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    LLocation (Access restricted to registered students):  Zoom

  • Tuesday, November 15, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty: Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Thursday, November 17, 2022; 3:30 PM - 5:00 PM

    Confounding and Interaction II: Concepts of Interaction

    Strategies to minimize confounding; types of interaction; distinguishing interaction from confounding; assessing for interaction; tests of homogeneity; computer implementation

    Faculty:  Jeffrey Martin

    Location: Zoom

    • Lecture Slides:

    • Confounding and Interaction II 2022 File

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

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

    • Large Group Discussion (Access restricted to registered students):
      Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

    • S & N: Ch. 6 and Ch. 1, section 1.4.5 (section on Matching)

      dagitty.net, an open source browser-based environment for creating, editing, and analyzing directed acyclic graphs

    • Optional Reading:

    • VanderWeele TJ and Robins JM. Four types of effect modification: A classification based on directed acyclic graphs. Epidemiology 18: 561-568, 2007. File
      Not available unless: Your ID number contains 02
    • Knol MJ et al. When one depends on the other: Reporting of interaction. Epidemiology 20:161-166, 2009. File
      Not available unless: Your ID number contains 02
    • Knol MJ and VanderWeele TJ. Recommendations for presenting analyses of effect modification and interaction. International Journal of Epidemiology 41:514-520, 2012. File
      Not available unless: Your ID number contains 02
    • VanderWeele and Knol. Tutorial on interaction. Epidemiol Methods 3:33-72, 2014. File
      Not available unless: Your ID number contains 02
    • Lousdal ML. An Introduction to instrumental variable assumptions, validation and estimation. Emerging Theme Epid 15: 2018 File
      Not available unless: Your ID number contains 02

    • Assignment: Problem Set 10

    • Problem Set 10 Confounding and Interaction II 2022 File

    • Assignment Due Date:  November 29, 2022

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

    • Problem Set 10 Confounding and Interaction II Answer Key 2022 File
    • Problem Set 10 Confounding and Interaction II Answer Key 2022 File
    • Problem Set 10 Confounding and Interaction II Answer Key 2022 File

  • Monday, November 21, 2022: No Drop in Sessions- Thanksgiving Holiday

     

  • Tuesday, November 22, 2022: No Small Group Discussions- Thanksgiving Holiday

  • Thursday, November 24, 2022: No Live Large Group Session- Thanksgiving Holiday

  • Monday, November 28, 2022; 1:00 PM - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    LLocation (Access restricted to registered students):  Zoom

  • Tuesday, November 29, 2022; 1:30 PM - 3:00 PM (Times and dates for Uganda or Brazil sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty:   Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom

  • Tuesday, November 29, 2022; 3:15 PM - 4:15 PM (Times and dates for Uganda or Brazil sessions may differ)

    Journal Club

    Application of concepts learned in the course to date in the critical dissection of an article in the applied literature

    Faculty:   Vivian Avelino-Silva, Trisha Hue, Kerstin Kolodzie; Jeff Martin, and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Remain in same Zoom URL or physical room as preceding Small Group

    • Required Reading:

    • Nitz et al. Association of prostaglandin E synthase 2 (PTGES2) Arg298His polymorphism with type 2 diabetes in two German study populations. Journal of Clinical Endocrinology & Metabolism 92:3183–3188, 2007. File
      Not available unless: Your ID number contains 02

    • Optional Reading:

    • Lunnetta KL. Genetic association studies. Circulation 118:96-101, 2008. File
      Not available unless: Your ID number contains 02
    • Holliday EG et al. Advanced topics in prognosis: How to use an article about genetic association. JAMA evidence 21.1-431-456, 2009. File
      Not available unless: Your ID number contains 02
    • Glossary JournalClub Genetic Diabetes File

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

    • Journal Club 5 Discussion KEY File

  • Thursday, December 1, 2022; 3:30 PM - 5:00 PM

    Confounding and Interaction III: Stratified Analysis

    Concept of weighted averages; use of stratification to form adjusted measures; managing multiple confounding paths; software implementation to detect minimally sufficient set for adjustment; limitations of stratification including time-dependent confounding/mediation

    Faculty:  Jeffrey Martin

    Location: Zoom

    • Lecture Slides:

    • Confounding and Interaction III 2022 File

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

    • Watch 2022 URL
      Not available unless: You belong to a group in Registered Students Only

    • Large Group Discussion (Access restricted to registered students):
      Brief formal review of lecture followed by question and answer discussion. Recorded lecture should be viewed prior to this session.

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Recommended Reading:

      S & N: Ch. 7: sections 7.1 - 7.2.1 and sections 7.3.3 - 7.3.4

      dagitty.net, an open source browser-based environment for creating, editing, and analyzing directed acyclic graphs

    • Optional Reading:

    • Shrier I and Platt R. Reducing bias through directed acyclic graphs. BMC Medical Research Methodology 8:70, 2008. File
      Not available unless: Your ID number contains 02
    • Suarez D et al. Differences between marginal structural models and conventional models in their exposure effect estimates. Epidemiology 22: 586-588, 2011. File
      Not available unless: Your ID number contains 02
    • Greenland S and Pearce N Statistical Foundations for Model Based Adjustments Ann Rev Pub Health 2015 File
      Not available unless: Your ID number contains 02
    • Myers et al Effects of adjusting for instrumental variables on bias and precision of effect estimates AJE 174 11 1213 2011 File
      Not available unless: Your ID number contains 02
    • VanderWeele et al Sensitivity Analysis Obs Research E-Value Ann Intern Med 2017 File
      Not available unless: Your ID number contains 02

    • Assignment: Problem Set 11

    • Problem Set 11 Confounding and Interaction III 2022 File
    • esophageal cancer File

    • Assignment Due Date:  December 6, 2022 at the beginning of Small Group Section

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

    • Problem Set 11 Confounding and Interaction III Answer Key 2022 File
    • Problem Set 11 Confounding and Interaction III Answer Key 2022 File
    • Problem Set 11 Confounding and Interaction III Answer Key 2022 File

  • Monday, December 5, 2022; 1:00 - 2:30 PM

    Drop-in Help

    Course faculty are available to address questions

    LLocation (Access restricted to registered students):  Zoom

  • Tuesday, December 6, 2022; 8:45 AM - 10:15 AM

    Journal Club

    Application of concepts learned in the course to date in the critical dissection of an article in the applied literature

    Faculty:   Jeffrey Martin

    Location: Zoom

    • Session Slides:

    • Journal Club 6 and Course Finale 2022 File

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

    • Watch 2022 Media Resource
      Not available unless: You belong to Registered Students Only

    • Required Reading:

    • Wakefield et al. Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children. Lancet. 351:637–41, 1998 File
      Not available unless: Your ID number contains 02
    • Porter J and Jick H Addiction rare in patients treated iwth narcotics NEJM 1980 File
      Not available unless: Your ID number contains 02

    • Optional Reading:

    • Von Elm et al. The strengthening the reporting of observational studies. Lancet 370-1453-1457, 2007 File
      Not available unless: Your ID number contains 02
    • Vandenbroucke et al. Strenthening the reporting of observational. PLoS Medicine 4-e297, 2007 File
      Not available unless: Your ID number contains 02

    • Assignment: Final Exam

    • Final Exam File
      Not available unless: Your ID number contains 02
    • Final Exam pdf File
      Not available unless: Your ID number contains 02
    • brcarctv6 File
    • Yaggi et al. Obstuctive sleep apnea as a risk factor for stroke and death. NEJM 353:2034-41, 2005. File
      Not available unless: Your ID number contains 02

    • Assignment Due Date: Dec. 13 at 11:59 pm (California time) for students whose Small Group Sessions are based in San Francisco.  For students in Brazil and Uganda, the due date is Dec. 14, 11:59 pm (California time). Please log into the CLE (course syllabus) to upload your exam at the prompt below.  Please upload your exam as two files:  a) an MS Word file and b) a .pdf file, and place your name in the name of the file (e.g.,  Smith_Joe).  If you encounter difficulties, email Agnes  Ng (Agnes.Ng@ucsf.edu).

    • Upload EPI 203 Final Exam Here Assignment

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

  • Tuesday, December 6, 2022; 1:30 PM - 3:00 PM (Times and dates for online sessions may differ)

    Small Group Discussion (see Roster for your section assignment)
    Review of prior lecture and problem set

    Faculty: Vivian Avelino-Silva, Clay Carter, Carrie Chan, Trisha Hue, Kerstin Kolodzie; Mason Lai, Jeff Martin, Shivani Mehta, James Najera, Maia Scarpetta and Richard Wang in San Francisco ; Vivian Avelino-Silva in Brazil; and Aggrey Semeere in Uganda

    Location (Access restricted to registered students): Carrie Chan MH-2105, James Najera MH-2106, Maia Scarpetta MH-2107, Mason Lai MH-2108, Shivani Mehta MH-2109, Clay Carter Zoom