Biostat 537 Lecture Files -- 2006

General
- Overview of Each Day = a log of what was covered in class (refresh)
- Lecture Web Page from 2005 = a look at what was covered in 2005
Week 1
- 03 Jan 2006 Notes: Introduction 1 -- Longitudinal Studies
- 03 Jan 2006 Notes: Introduction 2 -- Survival Data
- 05 Jan 2006 Notes: One Sample Summaries
- 05 Jan 2006 Herpes.raw Example Data.
- 05 Jan 2006 Herpes.doc Data Documentation.
- 05 Jan 2006 Published Article ----- details of the study and primary results.
- 05 Jan 2006 HerpesDiscrete-do.txt STATA Do File
- 05 Jan 2006 HerpesParametric-do.txt STATA Do File
- 05 Jan 2006 HerpesKM-do.txt STATA Do File
Week 2
- 10 Jan 2006 Notes: Testing Survival Curves
- 10 Jan 2006 HerpesLogRank-do.txt STATA Do file -- (updated 09 Jan 2006)
- 12 Jan 2006 LogRankSim.q -- an S+/R file to simulate data and evaluate various 2-sample tests.
- 12 Jan 2006 Kernel Density Estimator -- an applet showing the estimate of a density function, with different bandwidths and/or kernels.
Week 3
- 17 Jan 2006 Notes: Intro to Cox Regression
- 17 Jan 2006 HerpesCoxRegn-do.txt STATA Do file
- 19 Jan 2006 Notes: Cox Regression Summaries and Stratified Cox Regression
- 19 Jan 2006 HerpesCoxS0-do.txt -- STATA do file
- 19 Jan 2006 HerpesCoxStrata-do.txt -- STATA do file
Week 4
- 24 Jan 2006 Midterm (in-class) 2005
- 24 Jan 2006 QUIZ Hand-out of Formulae -- (POSTED 26 Jan 2006) this will be handed out with the QUIZ.
- 24 Jan 2006 Midterm Comments (key) (in-class) 2005
- 24 Jan 2006 Take-Home Midterm 2005
- 24 Jan 2006 Friberg et al. (1997) -- some comments on Analysis and Reporting
- 26 Jan 2006 Notes: Competing Risks
- 26 Jan 2006 Veronesi et al. (1995) -- article that presents analysis of competing risks
- 26 Jan 2005 cmprsk.pdf -- documentation / description of S+/R package to create cumulative incidence curves.
- 26 Jan 2005 stcompet -- Stata module to estimate cumulative incidence.
Week 5
- 31 Jan 2006 Notes: Left Truncation
- 31 Jan 2005 nickel-do.txt -- STATA example analysis.
- 31 Jan 2006 nickel.raw -- Example data.
- 31 Jan 2006 Kaldor-JNCI1986.pdf -- published analysis of cohort.
- 02 Feb 2006 BreslowDay-nickel.pdf -- Breslow & Day's presentation of nickel refiners analysis.
- 02 Feb 2006 Korn-AJE1997.pdf -- an Am J Epi paper discussing choice of time scales.
- 02 Feb 2006 Midterm Exam
- 02 Feb 2006 ColonDoc.txt -- documentation
- 02 Feb 2006 ColonData.txt -- data
- 02 Feb 2006 comments on midterm -- updated comments as needed (UPDATED 07 Feb 2006).
  - 22 Feb 2006 Master List of Comments for Midterms
  - 22 Feb 2006 NEJM article that presents these results (approx)
  - 22 Feb 2006 Example Student Analysis -- (1)
  - 22 Feb 2006 Example Student Analysis -- (2)
  - 22 Feb 2006 Example Student Analysis -- (3)
- 02 Feb 2006 Notes: Checking PH Assumption
- 02 Feb 2006 HerpesPHcheck-do.txt -- STATA example analysis.
- 02 Feb 2006 addicts-do.txt -- STATA example analysis.
- 02 Feb 2006 addicts.raw -- Example data.
Week 6
- 07 Feb 2006 Notes: Time-dependent Covariates
- 07 Feb 2006 HerpesTVC-do.txt ---- STATA example using herpes data
- 07 Feb 2006 heart-do.txt ---- STATA example using time-dependent covariate.
- 07 Feb 2006 heart.raw ---- Data
- 09 Feb 2006 heart2-do.txt ---- STATA example using START and STOP times for the multiple records per person.
Week 7
- 14 Feb 2006 Scribner-CancerResearch1983.pdf -- example presented in the notes on pp. 423--431.
- 14 Feb 2006 Notes: Model Specification and Checking
- 14 Feb 2006 mayo-do.txt ---- STATA example analysis of Mayo PBC data
- 14 Feb 2006 mayo.raw ---- Mayo PBC data
- 14 Feb 2006 Quiz Section Summary ---- from Yea-Hung
- 16 Feb 2006 Hernan (2000) Epidemiology ---- article about time-dependent covariates and marginal structural models.
Week 8
- 21 Feb 2006 Notes: Predictive Models
- 21 Feb 2006 mayoAIC-do.txt ---- STATA example analysis of Mayo PBC data
- 21 Feb 2006 mayoROC-do.txt ---- STATA example analysis of Mayo PBC data
- 23 Feb 2006 Final (in-class) 2005
- 23 Feb 2006 QUIZ Hand-out of Formulae -- this will be handed out with the QUIZ.
Week 9
- 28 Feb 2006 Notes: Alternative Epidemiologic Designs
- 28 Feb 2006 Essebag-2003AmHeartJ.pdf ---- article that overviews nested case-control designs, and comments on case-cohort designs.
- 28 Feb 2006 Wacholder-1991Epidemiology.pdf ---- article that compares nested case-control and case-cohort designs in terms of practical issues.
- 28 Feb 2006 McShane-JClinOnc2005.pdf ---- article that gives analysis / presentation guidelines for evaluating prognostic tumor markers.
- 02 Mar 2006 Notes: Intro Poisson Regression
- 02 Mar 2006 thall-do.txt ---- STATA code for the analysis of the seizure treatment trial data.
- 02 Mar 2006 ThallWide.raw ---- Progabide and Seizures data
Week 10
- 07 Mar 2006 Notes: Poisson Regression and Grouped Survival Data
- 07 Mar 2006 mayoPoisson-do.txt ---- analysis of Tx for the Mayo PBC Data
- 07 Mar 2006 MayoTimeDepData.raw ---- Mayo PBC Data expanded into multiple time periods per subject
- 09 Mar 2006 Notes: Grouped Survival Data -- Montana Example
- 09 Mar 2006 montana-do.txt ---- analysis of the Montana Smelter Data
- 09 Mar 2006 Arsenic deposition in the Puget Sound