Outcome Dependent Sampling for Longitudinal Data Analysis
Publications and Software

This page provides references to papers and links to software associated with our research related to longitudinal data analysis and outcome dependent sampling for longitudinal data.

People involved: Shawn Garbett, Sebastien Haneuse, Patrick Heagerty, Lee McDaniel, Nate Mercaldo, Paul Rathouz, Jonathan Schildcrout, Leila Zelnick

Published Work (with Pubmed Central Links when available)

  1. Mercaldo ND, Brothers KB, Carrell DS, Clayton EW, Connolly JJ, Holm IA, Horowitz CR, Jarvik GP, Kitchner TE, Li R, McCarty CA, McCormick JB, McManus VD, Myers MF, Pankratz JJ, Shrubsole MJ, Smith ME, Stallings SC, Williams JL, Schildcrout JS. Enrichment sampling for a multi-site patient survey using electronic health records and census data. J Am Med Inform Assoc. 2018 Dec 27. doi: 10.1093/jamia/ocy164. [Epub ahead of print] PubMed PMID: 30590688. link

  2. Zelnick LR, Schildcrout JS, Heagerty PJ. Likelihood-based analysis of outcome-dependent sampling designs with longitudinal data. Stat Med. 2018 Jun 15;37(13):2120-2133. doi: 10.1002/sim.7633. Epub 2018 Mar 15. PubMED PMID: 29542170. link

  3. Haneuse S, Rivera-Rodriguez C. On the Analysis of Case-Control Studies in Cluster-correlated Data Settings. Epidemiology. 2018 Jan;29(1):50-57. doi: 10.1097/EDE.0000000000000763. PubMed PMID: 29068840; PubMed Central PMCID: PMC5718962 link

  4. Schildcrout JS, Schisterman EF, Aldrich MC, Rathouz PJ. Outcome-related,Auxiliary Variable Sampling Designs for Longitudinal Binary Data. Epidemiology. 2018 Jan;29(1):58-66. doi: 10.1097/EDE.0000000000000765. PubMed PMID: 29068841; PubMed Central PMCID: PMC5718926. link

  5. Schildcrout JS, Schisterman EF, Mercaldo ND, Rathouz PJ, Heagerty PJ. Extending the Case-Control Design to Longitudinal Data: Stratified Sampling Based on Repeated Binary Outcomes. Epidemiology. 2018 Jan;29(1):67-75. doi: 10.1097/EDE.0000000000000764. PubMed PMID: 29068838; PubMed Central PMCID: PMC5718932. link

    ODSCode.R ODSCodeFunctions.R FullCohort.RData: An example of an R script that will conduct ODS analyses using a simulated dataset (FullCohortData.RData). This code contained in ODSCode.R calls ODSCodeFunctions.R and loads FullCohortData.RData in order to conduct analyses described in the manuscript.

  6. Schildcrout JS, Shi Y, Danciu I, Bowton E, Field JR, Pulley JM, Basford MA, Gregg W, Cowan JD, Harrell FE Jr, Roden DM, Peterson JF, Denny JC. A prognostic model based on readily available clinical data enriched a pre-emptive pharmacogenetic testing program. J Clin Epidemiol. 2016 Apr;72:107-15. doi: 10.1016/j.jclinepi.2015.08.028. Epub 2015 Nov 25. PubMed PMID: 26628336; PubMed Central PMCID: PMC4779720.

  7. Schildcrout JS, Rathouz PJ, Zelnick LR, Garbett SP, Heagerty PJ. BIASED SAMPLING DESIGNS TO IMPROVE RESEARCH EFFICIENCY: FACTORS INFLUENCING PULMONARY FUNCTION OVER TIME IN CHILDREN WITH ASTHMA. Ann Appl Stat. 2015 Jun;9(2):731-753. PubMed PMID: 26322147; PubMed Central PMCID: PMC4551501. link

  8. Alan Huang and Paul J. Rathouz. Orthogonality of the mean and error distribution in generalized linear models. Communications in Statistics - Theory and Methods. link

  9. Schildcrout JS, Garbett SP, Heagerty PJ. Outcome vector dependent sampling with longitudinal continuous response data: stratified sampling based on summary statistics. Biometrics. 2013 Jun;69(2):405-16. doi: 10.1111/biom.12013. Epub 2013 Feb 14. PubMed PMID: 23409789; PubMed Central PMCID: PMC3880022. link

  10. McDaniel, Lee S., Nicholas C. Henderson, and Paul J. Rathouz. "Fast Pure R Implementation of GEE: Application of the Matrix Package." R JOURNAL 5.1 (2013): 181-187. link

  11. Huang A, Rathouz PJ. Proportional likelihood ratio models for mean regression. Biometrika. 2012 Mar;99(1):223-229. PubMed PMID: 24421412; PubMed Central PMCID: PMC3888642. link

  12. Schildcrout JS, Mumford SL, Chen Z, Heagerty PJ, Rathouz PJ. Outcome-dependentsampling for longitudinal binary response data based on a time-varying auxiliary variable. Stat Med. 2012 Sep 28;31(22):2441-56. doi: 10.1002/sim.4359. Epub 2011 Nov 16. PubMed PMID: 22086716; PubMed Central PMCID: PMC3432177. link

  13. Schildcrout JS, Heagerty PJ. Outcome-dependent sampling from existing cohorts with longitudinal binary response data: study planning and analysis. Biometrics. 2011 Dec;67(4):1583-93. doi: 10.1111/j.1541-0420.2011.01582.x. Epub 2011 Apr 2. PubMed PMID: 21457191; PubMed Central PMCID: PMC3134621. link

  14. Schildcrout JS, Rathouz PJ. Longitudinal studies of binary response data following case-control and stratified case-control sampling: design and analysis. Biometrics. 2010 Jun;66(2):365-73. doi: 10.1111/j.1541-0420.2009.01306.x. Epub 2009 Aug 10. PubMed PMID: 19673861; PubMed Central PMCID: PMC3051172. link

  15. Schildcrout JS, Heagerty PJ. On outcome-dependent sampling designs for longitudinal binary response data with time-varying covariates. Biostatistics. 2008 Oct;9(4):735-49. doi: 10.1093/biostatistics/kxn006. Epub 2008 Mar 27. PubMed PMID: 18372397; PubMed Central PMCID: PMC2733177. link

Submitted work

  1. Lee S. McDaniel Jonathan S. Schildcrout, and Paul J. Rathouz. Generalized linear models under biased sampling designs: A sequential offsetted regression approach. (in revision)

Work in progress

  1. Outcome vector dependent sampling for continuous longitudinal data
  2. Observation-level outcome related sampling designs for longitudinal data

Video Seminars

  1. September 2013 (Schildcrout to HSR at VU): http://biostat.mc.vanderbilt.edu/wiki/Main/JonathanSchildcroutVideo
  2. October 2015 (Rathouz to Epi at UW Madison): http://videos.med.wisc.edu/videos/62263

Links to Software

Topic attachments
I Attachment Action Size Date Who Comment
FullCohort.RDataRData FullCohort.RData manage 87.4 K 16 Aug 2017 - 17:30 JonathanSchildcrout Full cohort data that is used by ODSCode.R to run analyses
ODSCode.RR ODSCode.R manage 3.7 K 16 Aug 2017 - 17:24 JonathanSchildcrout Example to conduct an ODS analysis using a simulated dataset. This code runs the full cohort model with maximum likeliheood and the ODS sample using ACML, WL, MI
ODSCodeFunctions.RR ODSCodeFunctions.R manage 15.7 K 16 Aug 2017 - 17:28 JonathanSchildcrout Functions called by ODSCode.R to run analyses
Topic revision: r27 - 13 Feb 2019, JonathanSchildcrout

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