1. Stephens AJ, Tchetgen Tchetgen EJ, DeGruttola V. “Augmented generalized estimating equations for improving efficiency and validity of estimation in cluster randomized trials by leveraging cluster-level and individual-level covariates.” Statistics in Medicine. 2012 May 10;31(10):915-930. PMCID: PMC3495191
  2. Goyal R, Wang R, DeGruttola V. “Editorial commentary: network epidemic models: assumptions and interpretations.” Clin Infect Dis. 2012 Jul;55(2):276-8. PMCID: PMC3403840
  3. Izu A, Cohen T, DeGruttola V. “Bayesian Estimation of Mixture Models with Prespecified Elements to Compare Drug Resistance in Treatment-Naive and Experienced Tuberculosis Cases.” PLoS Comp Bio. 2013;9(3):e1002973. PMCID: PMC3605089
  4. Wang R, Weng J, Moyo S, Pain D, Barr CD, Maruapula D, Mongwato D, Makhema J, Novitsky V, Essex M. “Short communication: effect of short-course antenatal zidovudine and single-dose nevirapine on the BED capture enzyme immunoassay levels in HIV type 1 subtype C infection.” AIDS Research and Human Retroviruses. 2013;29(6):901-906. PMCID: PMC3653368
  5. Stock S, DeGruttola V. “Recursive Partitioning for Monotone Missing at Random Longitudinal Markers”. Statistics in Medicine. 2013 Mar 15;32(6):978-94. PMCID: PMC3754451
  6. Stephens A, Tchetgen Tchetgen EJ, De Gruttola V. “Flexible covariate-adjusted exact tests of randomized treatment effects with application to a trial of HIV education.” Annals of Applied Statistics. 2013 Dec 23;7(4):2106-2137. PMCID: PMC3935423
  7. Novitsky V, Bussmann H, Logan A, Moyo S, Widenfelt E, Okui L, Mmalane M, Baca J, Buck L, Phillips E, Tim D, McLane MF, Lei Q, Wang R, Makhema J, Lockman S, DeGruttola V, Essex M. “Phylogenetic Relatedness of Circulating HIV-1C Variants in Mochudi, Botswana.” PLoS One. 2013 Dec 11;8(12):e80589. PMCID: PMC3859477
  8. Burns DN, DeGruttola V, Pilcher CD, Kretzschmar M, Gordon CM, Flanagan EH, Duncombe C, Cohen MS. “Toward an endgame: finding and engaging people unaware of their HIV-1 infection in treatment and prevention.” AIDS Res Hum Retroviruses. 2014 Mar;30(3):217-24. PMCID: PMC3938938
  9. Wang R, Goyal R, Lei Q, Essex M, De Gruttola V. “Sample size considerations in the design of cluster randomized trials of combination HIV prevention”. Clin Trials. 2014 Mar 20;11(3):309-318.  NIHMS558805    ACCEPTED MANUSCRIPT    EXAMPLE CODE    EXAMPLE CODE 2
  10. Stephens A, Tchetgen Tchetgen E, De Gruttola V. “Locally efficient estimation of marginal treatment effects when outcomes are correlated: is the prize worth the chase?” Int J Biostat. 2014 May 1;10(1):59-75. doi: 10.1515/ijb-2013-0031. PMC Journal – In Process
  11. Wirth K, Tchetgen Tchetgen EJ. “Accounting for selection bias in association studies with complex survey data.” Epidemiology. 2014;25(3):444-453. PMCID: PMC3981932
  12. Carnegie NB, Wang R, Novitsky V, De Gruttola V. “Linkage of viral sequences among HIV-infected village residents in Botswana: estimation of linkage rates in the presence of missing data.” PLoS Comput Biol. 2014 Jan;10(1):e1003430. PMCID: PMC3886896    EXAMPLE CODE
  13. Goyal R, Blitzstein J, DeGruttola V. “Sampling Networks from Their Posterior Predictive Distribution.” Network Science. 2014 April;2(1):107-131. NIHMS599825     SOFTWARE
  14. Lynch M, DeGruttola V. “Predicting time to threshold for initiating antiretroviral treatment to evaluate cost of treatment as HIV prevention”. JRSSC. In Press. PMC Journal – In Process
  15. Gleeson J, Cellai D, Onnela JP, Porter MA, Reed-Tsochas F. “A Simple Generative Model of Collective Online Behaviour.” PNAS. published ahead of print July 7, 2014, doi:10.1073/pnas.1313895111. PMC Journal – In Process
    SIMULATION CODE (In order to run, 2 additional data files are needed – interested parties should contact Jukka-Pekka Onnela)
  16. Carnegie NB, Krivitsky PN, Hunter DR, Goodreau SM. “An approximation method for improving dynamic network model fitting.” Journal of Computational and Graphical Statistics. doi: 10.1080/10618600.2014.903087. NIHMS589216    SOFTWARE
  17. Goodreau SM, Carnegie NB, Vittinghoff E, Lama JR, Sanchez J, Fuchs J and Buchbinder SP. “Can male circumcision have an impact on the HIV epidemic in men who have sex with men?” PLoS ONE, accepted