Erasmus 2014: Lecture Files

Introduction
- [NOTES] Notes: Introduction 1 -- Longitudinal Studies (pp. 1--27)
- [NOTES] Notes: Introduction 2 -- Survival Data (pp. 28--55)
Survival Curve Estimation
- [NOTES] Notes: One Sample Summaries (pp. 56--125)
- Herpes.raw Example Data.
- Herpes.doc Data Documentation.
- Published Article ----- details of the study and primary results.
- HerpesDiscrete-do.txt STATA Do File
- HerpesParametric-do.txt STATA Do File
- HerpesKM-do.txt STATA Do File
Comparing Survival Curves
- [NOTES] Notes: Testing Survival Curves (pp. 126--182)
- HerpesLogRank-do.txt STATA Do file
- LogRankSim.q -- an S+/R file to simulate data and evaluate various 2-sample tests.
- Kernel Density Estimator -- discussion, and links to both an applet showing the estimate of a density function, with different bandwidths and/or kernels, and an on-line (using R) calculator (SEE end of section).
Intro to Cox Regression
- [NOTES] Notes: Intro to Cox Regression (pp. 183--223)
- HerpesCoxRegn-do.txt STATA Do file
- [NOTES] Notes: Cox Regression Summaries and Stratified Cox Regression (pp. 224--263)
- HerpesCoxS0-do.txt -- STATA do file
- HerpesCoxStrata-do.txt -- STATA do file
- Friberg et al. (1997) -- some comments on Analysis and Reporting
- Ghali et al. (2001) JAMA -- comparison of two methods for adjusting survival curves.
Competing Risks
- [NOTES] Notes: Competing Risks (pp. 264--297)
- Veronesi et al. (1995) -- article that presents analysis of competing risks
- cmprsk.pdf -- documentation / description of S+/R package to create cumulative incidence curves.
- stcompet -- Stata module to estimate cumulative incidence.
- Coviello (2004) STATA Journal -- paper that describes cumulative incidence estimation using STATA
Left Truncated Data
- [NOTES] Notes: Left Truncation (pp. 298--325)
- nickel-do.txt -- STATA example analysis.
- nickel.raw -- Example data.
- Kaldor-JNCI1986.pdf -- published analysis of cohort.
- BreslowDay-nickel.pdf -- Breslow & Day's presentation of nickel refiners analysis.
- Korn-AJE1997.pdf -- an Am J Epi paper discussing choice of time scales.
Model Checking: Proportional Hazards Assumption
- [NOTES] Notes: Checking PH Assumption (pp. 326--379)
- HerpesPHcheck-do.txt -- STATA example analysis.
- addicts-do.txt -- STATA example analysis.
- addicts.raw -- Example data.
Time-dependent Covariates
- [NOTES] Notes: Time-dependent Covariates (pp. 380--450)
- HerpesTVC-do.txt ---- STATA example using herpes data
- Sears (2008) J. Occ. Rehab. ---- papers that uses "tvc" idea to synthesize analysis of work-loss duration (J. Sears was 2006 student!)
- heart-do.txt ---- STATA example using time-dependent covariate.
- heart.raw ---- Data
- heart2-do.txt ---- STATA example using START and STOP times for the multiple records per person.
- Scribner-CancerResearch1983.pdf -- example presented in the notes on pp. 422--430.
Model Specification
- [NOTES] Notes: Model Specification and Checking (pp. 451--506)
- mayo-do.txt ---- STATA example analysis of Mayo PBC data
- mayo.raw ---- Mayo PBC data
- Hernan (2000) Epidemiology ---- article about time-dependent covariates and marginal structural models.
Models for Prediction
- [NOTES] Notes: Predictive Models (pp. 507--565)
- mayoAIC-do.txt ---- STATA example analysis of Mayo PBC data
- mayoROC-do.txt ---- STATA example analysis of Mayo PBC data
Alternative Study (Sampling) Designs
- [NOTES] Notes: Alternative Epidemiologic Designs (pp. 566--585)
- Essebag-2003AmHeartJ.pdf ---- article that overviews nested case-control designs, and comments on case-cohort designs.
- Wacholder-1991Epidemiology.pdf ---- article that compares nested case-control and case-cohort designs in terms of practical issues.
- McShane-JClinOnc2005.pdf ---- article that gives analysis / presentation guidelines for evaluating prognostic tumor markers.
EXAM COMMENTS
- Competencies for this course: Course Competencies
- Practice Review Questions: Questions