Chiung-Yu Huang

Associate Professor

Division of Biostatistics and Bioinformatics

Sidney Kimmel Comprehensive Cancer Center

Johns Hopkins University

Curriculum Vitae

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Official SOM webpage

Official SPH webpage

Dr. Chiung-Yu Huang received her Ph.D. degree in Biostatistics from the Johns Hopkins University in 2002 and joined the Division of Biostatistics, University of Minnesota School of Public Health as an Assistant Professor in the same year. She served as a Mathematical Statistician at the National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH) from 2004 to 2013, and joined the Johns Hopkins Sidney Kimmel Comprehensive Cancer Center in the summer of 2013. She holds a joint appointment with the Department of Biostatistics, Bloomberg School of Public Health, Johns Hopkins University.


Research interests

Dr. Huang's research interest lies in biostatistics methodology and its applications to medicine, epidemiology, and biology. She has developed new statistical methods for analyzing survival outcomes, competing risks, recurrent events, multivariate survival times, and longitudinal measurements. She also has extensive experience in the design and analysis of clinical trials and laboratory experiments, and analysis of longitudinal data.

Funding Support

Statistical Methods for Survival and Recurrent Event Data in Clinical Research
NIH/NCI   1R01CA193888   7/1/2015 ~ 6/30/2020
Study section: BMRD
PI: Chiung-Yu Huang, Ph.D.

SLAM Working Group

Dr. Huang is the co-leader (with Professor Mei-Cheng Wang) of the SLAM working group. This working group provides a forum for discussing state of the art research in Survival, Longitudinal And Multivariate (SLAM) data analysis. The SLAM activities include

  • seminar presentations
  • short courses offered by faculty members
  • student project presentations

The group regularly meets on Fridays from 1:30 PM to 2:45 PM in BSPH Room E3607.

Click the link for upcoming SLAM activities. Open


Survival Analysis I (140.641)

Course webpage

Meeting time: Tuesdays and Thursdays 3:30PM - 4:50 PM (SPH W3030)

Office hours: Tuesdays 2-3 PM (SPH E3533)

Teaching assistants: Qin Cai and Youjin Lee


Selected Statistical Publications

  • Huang CY and Wang MC. Joint modeling and estimation for recurrent event processes and failure time data. Journal of the American Statistical Association. 2004: 99(468): 1153-1165. [PubMed] R package "reReg"

  • Huang CY and Wang MC. Nonparametric estimation of the bivariate recurrence time distribution. Biometrics. 2005: 61(2): 392-402. [PubMed]

  • Huang CY, Wang MC, Zhang Y. Analyzing panel count data with informative observation times. Biometrika. 2006: 93(4): 763-775. [PubMed] R package "reReg"

  • Huang CY, Qin J, Follmann DA. Empirical likelihood-based estimation of the treatment effect in a pretestposttest study. Journal of the American Statistical Association. 2008: 103 (483): 1270-1280. [PubMed]

  • Huang CY, Qin J, Wang MC. Semiparametric analysis for recurrent event data with time-dependent covariates and informative censoring. Biometrics. 2010: 66 (1): 39-49. [PubMed]

  • Luo X, Wang MC, Huang CY. A comparison of various rate functions of a recurrent event process in the presence of a terminal event. Statistical Methods in Medical Research. 2010: 19 (2): 167-182. PMID: 18445699 [PubMed]

  • Luo X and Huang CY. Analysis of recurrent gap time data using the weighted risk set method and the modified within-cluster resampling method. Statistics in Medicine. 2011: 30 (4): 301-311. [PubMed]

  • Huang CY, Luo X, Follmann DA. A model checking method for the proportional hazards model for recurrent gap time data. Biostatistics. 2011: 12 (3): 535-547. [PubMed]

  • Huang CY and Qin J. Nonparametric estimation under length-biased sampling. Biometrika. 2011: 98 (1): 177-186. [PubMed]

  • Huang CY, Qin J, Follmann DA. A maximum pseudo-profile likelihood estimator for the Cox model with length-biased sampling. Biometrika. 2012: 99 (1): 199-210. [PubMed]

  • Huang CY and Qin J. Composite partial likelihood estimation for length-biased and right-censored data. Journal of the American Statistical Association. 2012: 107 (499): 946-957. [PubMed]

  • Luo X, Huang CY, Wang L. Quantile regression for recurrent gap time data. Biometrics. 2013: 69(2): 375-385. [PubMed]

  • Huang CY and Qin J. Semiparametric estimation of the additive hazards model with left-truncated and right-censored data. Biometrika. 2013: 100(4): 877-888.

  • Wang MC and Huang CY. Statistical inference methods for recurrent event processes with shape and size parameters. Biometrika. 2014: 101(3): 553-566. [PubMed]

  • Cheng YJ and Huang CY. Combined estimating equation approaches for semiparametric transformation models with length-biased survival data. Biometrics. 2014: 70(3): 608-618. [PubMed]

  • Follmann DA and Huang CY. Incorporating founder virus information in vaccine field trials. Biometrics. 2015: 71(2): 386-396. [PubMed]

  • Huang CY, Ning J, Qin J. Semiparametric likelihood inference for left-truncated and right-censored data. Biostatistics. 2015: 16(4): 785-798. [PubMed]

  • Li S, Sun Y, Huang CY*, Follmann DA, Krause RM. Recurrent event data analysis with intermittently observed time-varying covariates. Statistics in Medicine. 2016;35(18):3049-3065. (*Corresponding author; this paper won a Biometrics Section Travel Award for 2016 Joint Statistical Meetings.) [PubMed]

  • Lee CH, Luo X, Huang CY, DeFor TE, Brunstein CG, Weisdorf DJ. Nonparametric method for analyzing recurrent gap time data with application to infections after hematopoietic cell transplant. Biometrics. 2016;72(2): 535-545. (*An earlier version of this paper won an ENAR Distinguished Student Paper Award in 2013.) [PubMed]

  • Huang CY, Wang CG, Wang MC. Nonparametric analysis of bivariate gap time with competing risks. Biometrics. 2016; 72(3): 780-790. [PubMed] R package "bigtcr"

  • Follmann DA, Huang CY, Gabriel E. Who really gets strep sore throat? Confounding and effect modification of a time varying exposure on recurrent event. Statistics in Medicine. 2016;35(24):4398-4412. [PubMed]

  • Huang CY, Qin J, Tsai HT. Efficient estimation of the Cox model with auxiliary subgroup survival information. Journal of the American Statistical Association. 2016; 111(2):787-799.

  • Xu G, Chiou S, Huang CY, Wang MC, Yan J. Joint scale-change models for recurrent events and failure time. Journal of the American Statistical Association. 2017; 112:794-805. R package "reReg"

  • Sun Y, Huang CY, Wang MC. Nonparametric benefit-risk assessment using marker processes in the presence of a terminal event. Journal of the American Statistical Association. 2017; 112:826-836 . (An earlier version of this paper won the 2015 JSM Best Student Paper Award for the Section on Risk Analysis of the American Statistical Association and the 2015 Jane and Steve Dykacz Award in recognition of an outstanding paper by a Biostatistics student in the area of medical statistics.)

  • Xu G, Sit T, Wang L, Huang CY. Quantile regression with survival data under general biased sampling schemes. Journal of the American Statistical Association. Accepted.

Selected Medical Publications

  • Engler RJ, Nelson MR, Klote MM, VanRaden MJ, Huang CY, Cox NJ, Klimov A, Keitel WA, Nichol KL, Carr WW, Treanor JJ; Walter Reed Health Care System Influenza Vaccine Consortium. Half- vs full-dose trivalent inactivated influenza vaccine (2004-2005): age, dose, and sex effects on immune responses. Archives of Internal Medicine. 2008: 168 (22): 2405-2414. (Editorial commentary on pages 2402-2403) [PubMed]

  • Crompton PD, Mircetic M, Weiss G, Baughman A, Huang CY, Topham DJ, Treanor JJ, Sanz I, Lee FE, Durbin AP, Miura K, Narum DL, Ellis RD, Malkin E, Mullen GE, Miller LH, Martin LB, Pierce SK. The TLR9 ligand CpG promotes the acquisition of Plasmodium falciparum-specific memory B cells in malaria-naive individuals. Journal of Immunology. 2009: 182 (5): 3318-3326. [PubMed]

  • Weiss G, Traore B, Kayentao K, Ongoiba A, Doumbo S, Doumtabe D, Kone Y, Dia S, Guindo A, Huang CY, Muira K, Mircetic M, Li S, Baughman A, Narum DL, Miller LH, Doumbo OK, Pierce SK, and Crompton PD. The Plasmodium falciparum-specific human memory B cell compartment expands gradually with repeated malaria infections. PLoS Pathogens. 2010: 6(5): e1000921. [PubMed]

  • Sui J, Sheehan J, Huang W, Liddington R. Huang CY, Beigel JH and Marasco WA. Wide prevalence of heterosubtypic broadly neutralizing human anti-Influenza A antibodies. Clinical Infectious Diseases. 2011: 52 (8): 1003-1009. [PubMed]

  • Srinivasula S, Lempicki RA, Adelsberger JW, Huang CY, Roark J, Lee PI, Rupert A, Stevens R, SeretiI I, Lane HC, Di Mascio M, Kovacs JA. Differential effects of HIV viral load and CD4 counts on proliferation of naive and memory CD4 and CD8 T lymphocytes. Blood. 2011: 118 (2): 262-270. [PubMed]

  • Tsai HT, Marshall JL, Smith SW, Warren JL, Freedman AN, Huang CY, Potosky AL. Bevacizumab use and risk of cardiovascular adverse events among elderly patients with colorectal cancer receiving chemotherapy: a population-based study. Annals of Oncology. 2013: 24(6): 1574-1579. [PubMed]

  • Goncalves BP, Huang CY, Morrison R, Holte S, Kabyemela E, Prevots DR, Fried M, Duffy PE. Parasite burden and severity of malaria in Tanzanian children. New England Journal of Medicine. 2014: 370(19), 1799-1808. [PubMed]

  • Sibley CT, Estwick T, Zavodni A, Huang CY, Kwan A, Soule B, Priel DL, Remaley AT, Kuhns D, Holland SM, Malech HL, Zarember KA, Bluemke DA, and Gallin JI. Assessment of atherosclerosis in chronic granulomatous disease. Circulation. 2014:130(23):2031-2039. [PubMed]

  • Marciano B, Huang CY, et al. BCG vaccination in patients with severe combined immunodeficiency: complications, risks, and vaccination policies. Journal of Allergy and Clinical Immunology. 2014:133(4):1134-1141. [PubMed]


R scripts

  • R package "reReg" for joint modeling of recurrent events and failure time. Functions for analyzing panel count data with informative censoring will be provided in the next version. (Huang and Wang, JASA 2004; Ghosh and Lin, Biometrics 2003; Huang, Wang, and Zhang, Biometrika 2006; Xu, Chiou, Huang, Wang, and Yan, JASA 2016)
  • R package "bigtcr" for nonparametric analysis of bivariate gap time with competing risks (Huang, Wang, and Wang, Biometrics 2016)
  • R scripts for the maximum composite partial likelihood estimator in the paper "Composite partial likelihood estimation for length-biased and right-censored data" (JASA 2012)
  • R scripts for data analysis in the paper "Quantile regression for recurrent gap time data" (Biometrics 2013)
  • R scripts for data analysis in the paper "Combined estimating equation approaches for semiparametric transformation models with length-biased survival data" (Biometrics 2014)