Research

Google Scholar version of my publications.

 

Research Interests

I am a statistician with interests in:

• Spatial demography: space-station materials are here.
• Small area estimation
• Spatial epidemiology
• Space-time models for infectious disease data
• Estimating under-5 mortality in a low and medium income countries context
• Hierarchical models for survey data
• Estimating national and subnational disease burden
• Ecological inference for non-infectious and infectious disease data
• The links between Bayes and frequentist procedures

Small Area Estimation Software

• SAE for prevalance software summaries at SAE4Health The next two products are reachable from here.
• The R package surveyPrev carries out small area estimation using DHS data and a variety of statistically rigorous methods. See also SAE4Health
• The associated shinyApp provides a user-friendly interface to the package. See also SAE4Health
• Methods for smoothing of direct estimates in time and space, and mapping the subsequent estimated are contained in the SUMMER package at CRAN: SUMMER

Awards

• Guy Medal in Bronze, Royal Statistical Society, 2000
• Fellow of the American Statistical Association, 2007

Refereed Articles

Early demos, B-sides and remixes on arXiv: here.

2024

• Michal, V., Wakefield, J., Schmidt, A.M., Cavanaugh, A., Robinson, B. and Baumgartner, J. (2024). Model-based prediction for small domains using covariates: a comparison of four methods. To appear, Journal of Survey Statistics and Methodology.
• Wakefield, J. and Knutson, V. (2024). Excess mortality estimation. To appear, Annual Review of Statistics and Its Application, 12.
• Goldstein, I.H., Wakefield, J. and Minin, VM. (2024). Incorporating testing volume into estimation of effective reproduction number dynamics. Journal of the Royal Statistical Society, Series A, 187, 436-453.
• Okonek, T. and Wakefield, J. (2024). A Computationally Efficient Approach to Fully Bayesian Benchmarking. Journal of Official Statistics, 40, 283-316.
• Gao, P.A. and Wakefield, J. (2024). Smoothed model-assisted small area estimation of proportions. The Canadian Journal of Statistics, 52, 337-358.
• Aleshin-Guendel, S., Sadinle, M. and Wakefield, J. (2024). Revisiting identifying assumptions for population size estimation (with discussion). Biometrics, 80, Published online: 14 March, 2024.
• Peterson, E.N., Nethery, R.C., Padellini, T., Chen, J.T., Coull, B.A., Piel, F.B. Wakefield, J., Blangiardo, M. Waller, L.A. (2024). A Bayesian hierarchical small area population model accounting for data source specific methodologies from American Community Survey, Population Estimates Program, and decennial census data. Annals of Applied Statistics ,18, 1565-1595.
• Wu, Y. and Wakefield, J. (2024). Modeling urban/rural fractions in low- and middle-income countries. Journal of the Royal Statistical Society, Series A. Published online: 19 January, 2024.

2023

• Knutson V., Aleshin-Guendel S., Karlinsky A., Msemburi W. and Wakefield J. (2023). Estimating global and country-specific excess mortality during the COVID-19 pandemic. Annals of Applied Statistics, 17, 1353-1374.
• Msemburi W, Karlinsky A, Knutson V, Aleshin-Guendel S, Chatterji S and Wakefield J (2023). Estimates of the excess mortality associated with the COVID-19 pandemic from the World Health Organization. Nature, 613, 130-137
• Osgood-Zimmerman, A, and Wakefield, J. (2023). A statistical review of Template Model Builder: A flexible tool for spatial modelling. International Statistical Review, 91, 318-342,
• Hsiao Y, Fiorio L, Wakefield J and Zagheni E (2023). Modeling the bias of digital data: An approach to combining digital with official statistics to estimate and predict migration trends. Sociological Methods and Research. Published online: January 2, 2023.
• Meisner, J., Kato, K., Lemerani, M. Miaka, E.M., Taban, A.I., Wakefield, J., Rowhani-Rahbar, A., Pigott, D.M., Mayer, J. and Rabinowitz, P.M. (2023). Livestock, pathogens, vectors, and their environment: a causal inference-based approach to estimating the pathway-specific effect of livestock on human African trypanosomiasis risk. PLoS Global Public Health, 3, e0002543.
• Gao, P.A. and Wakefield, J. (2023). A spatial variance‐smoothing area level model for small area estimation of demographic rates. International Statistical Review, 91, 493-510.
• Allorant, A., Fullman, N., Leslie, H.H., Sarr, M., Gueye, D., Eliakimu, E, Wakefield, J., Dieleman, J.L., Pigott, D., Puttkammer, N. and Reiner Jr, R.C. (2023). A small area model to assess temporal trends and sub-national disparities in healthcare quality. Nature Communications, 14, 4555.
• Augusto, O., Roberton, T., Fernandes, Q., Chicumbe, S., Manhiça, I., Tembe, S., Wagenaar,B.H., Anselmi, L., Wakefield, J. and Sherr, K. (2023). Early effects of COVID-19 on maternal and child health service disruption in Mozambique. Frontiers in Public Health, 11, 1075691.
• Meisner, J., Kato, K., Lemerani, M. Miaka, E.M., Ismail, A.T.,.I., Wakefield, J., Rowhani-Rahbar, A., Pigott, D.M., Mayer, J., Lorton, C. and Rabinowitz, P.M. (2023). Does a One Health approach to human African trypanosomiasis control hasten elimination? A stochastic compartmental modeling approach. Acta Tropica, 240, 106804.
• Rane, M. Wakefield, J., Rohani, P. and Halloran, M.E. (2023). Association between pertussis vaccination coverage and other sociodemographic factors and pertussis incidence using surveillance data. Epidemics, 44, 100689.

2022

• Meisner J., Kato, A., Lemerani, M.M., Miaka, E.M., Taban, A.I., Wakefield, J., Rowhani-Rabhar, A., Pigott, D.M., Mayer, J.D. and Rabinowitz, P.M. (2022). The effect of livestock density on Trypanosoma brucei gambiense and T.b. rhodesiense: A causal inference-based approach. PLOS Neglected Tropical Diseases. Published, August 29, 2022.
• Wang, Z., Fix, M., Hug, L., Mishra, A., You, D., Blencowe, H., Wakefield, J. and Alkema, L. (2022). Estimating the stillbirth rate for 195 countries using a Bayesian sparse regression model with temporal smoothing. Annals of Applied Statistics, 16, 2101-2121.
• Meisner, J., Kato, A., Lemerani, M.M., Miaka, E.M., Taban, A.I., Wakefield, J., Rowhani-Rabhar, A., Pigott, D.M., Mayer, J.D. and Rabinowitz, P.M. (2022). A time-series approach to mapping livestock density using household survey data. Nature Scientific Reports, 12, 13310.
• Wilson, K.L. and Wakefield, J. (2022). A probabilistic model for analyzing summary birth history data. Demographic Research, 47, 291-344.
• Schumacher, A., McCormick, T., Wakefield, J., Chu, Y., Perin, J., Villavicenio, F., Simon, N. and Liu, L. (2022). A flexible Bayesian framework to estimate age- and cause-specific child mortality over time from sample registration data. Annals of Applied Statistics, 16, 124-143.
• Hughes, J.P., Williamson, B.D., Krakauer, C., Chau, G., Ortiz, B., Wakefield. J., Hendrix, C., Amico, K.R., Holtz, T.H., Bekker, L.-G. and Grant, R. (2022). Combining information to estimate adherence in studies of pre-exposure prophylaxis for HIV prevention: application to HPTN 067. Statistics in Medicine, 41, 1120-1136.
• Paige, J., Fuglstad, G.-A., Riebler, A. and Wakefield, J. (2022). Bayesian Multiresolution Modeling of Georeferenced Data: An Extension of `LatticeKrig'. Computational Statistics and Data Analysis, 173, 107503.
• Kline, D., Li, Z., Chu, Y., Wakefield, J., Miller, W.C., Turner, A.N. and Clark, S. (2022). Estimating seroprevalence of SARS-CoV-2 in Ohio: A Bayesian multilevel poststratification approach with multiple diagnostic tests. PNAS., 118, e2023947118
• Turner, A.N., Kline, D., Norris, A.H., Phillips, W.G., Root, E., Wakefield, J., Li, Z., Lemeshow, S., Spahnie, M., Luff, A., Chu, Y., Francis, M.K., Gallo, M.F., Chakraborty, P., Lindstrom, M., Lozanski, G., Miller, W., Clark, S. (2022). Prevalence of current and past COVID-19 in Ohio adults. Annals of Epidemiology, 67,50-60.
• Paige J, Fuglstad G-A, Riebler A and Wakefield J (2022). Spatial aggregation with respect to a population distribution: impact on inference. Spatial Statistics, 52, 100714.

2021

• Dong, T.Q. and Wakefield, J. (2021). Space-time smoothing models for subnational measles routine immunization coverage estimation with complex survey data. Annals of Applied Statistics, 15, 1959-1979.
• Wu, Y., Li, Z.R., Mayala, B.K., Wang, H., Gao, P., Paige, J., Fuglstad, G.-A., Moe, C., Godwin, J., Donohue, R.E., Crodt, T.N., and Wakefield, J. (2021). Spatial modeling for subnational administrative level 2 small-area estimation. DHS Spatial Analysis Reports No. 21. Rockville, Maryland, USA. Software
• Hug, L.,..., Wakefield, J.,..., Alkema, L. (2021). Global, regional, and national estimates and trends in stillbirths from 2000 to 2019: a systematic assessment. The Lancet, 398, 772-785.
• Eaton, J.W,..., Wakefield, J.,..., Shiraishi, R.W. (2021). Naomi: a new modelling tool for estimating HIV epidemic indicators at the district level in sub-Saharan Africa. Journal of the International AIDS Society, 21, e25788.
• Dong, T. and Wakefield (2021). Modeling and presentation of vaccination coverage estimates using data from household surveys. Vaccine, 39, 2584-2594.
• Fintzi, J., Wakefield, J. and Minin, V. (2021). A linear noise approximation for stochastic epidemic models fit to partially observed incidence counts. Biometrics, 78, 1530-1541.
• Wilson, K. and Wakefield, J. (2021). Estimation of health and demographic indicators with incomplete geographic information. Spatial and Spatio-temporal Epidemiology , 37, 100421.
• Marquez, N. and Wakefield, J. (2021). Harmonizing child mortality data at disparate geographic levels. Statistical Methods in Medical Research, 30, 1187-1210.
• Godwin, J. and Wakefield, J. (2021). Space-time modeling of child mortality at the admin-2 level in a low and middle income countries context. Statistics in Medicine, 40, 1593-1638.
• Paige, J., Fuglstad, G.-A., Riebler, A. and Wakefield, J. (2021). Design- and model-based approaches to small-area estimation in a low and middle income country context: comparisons and recommendations. Journal of Survey Statistics and Methodology, 10, 50-80.

2020

• Wilson. K. and Wakefield, J. (2020). Child mortality estimation incorporating summary birth history data. Biometrics, 77, 1456-1466.
• Sbarra, A.N.,...Wakefield, J.,..., Mosser, J.F. (2020). Mapping routine measles vaccination in low- and middle-income countries. Nature, 589, 415-419
• Wakefield, J., Okonek, T. and Pedersen, J. (2020). Small area estimation for disease prevalence mapping. International Statistical Review, 88, 398-418.
• Firth, C., Carlini, B., Dilley, J., Wakefield, J., Hajat, A. (2020). What about equity? Neighborhood deprivation and cannabis retailers in Portland, Oregon. Cannabis, 3, 157-172.
• Fisher, L. and Wakefield, J. (2020). Ecological inference for infectious disease data, with application to vaccination strategies. Statistics in Medicine, 39, 220-238. Statistics in Medicine Website
• Wilson, K. and Wakefield, J. (2020). Pointless spatial modeling. Biostatistics, 21, e17-e32. Published online 6 September, 2018. Paper available at Biostatistics Website Paper and Supplement
• Liang, P., Mayer, J., Wakefield, J., Chau, T.-S., Kwon, S., Scott, S., Ko, C. (2020). Trends in Sociodemographic Disparities in Colorectal Cancer Staging and Survival: A SEER–Medicare Analysis. Published: January 22, 2020. Clinical and Translational Gastronenterology, 11, e00155. Paper available at CTG Website

2019

• Wakefield, J. and Fuglstad, G.-A. and Riebler, A. and Godwin, J. and Wilson, K. and Clark, S.J. (2018). Estimating under five mortality in space and time in a developing world context. Statistical Methods in Medical Research, 9, 2614-2634. Paper and Supplement
• Burstein, R., Henry, N,...Wakefield, J.,...,Hay, S.I. (2019). Mapping 123 Million Neonatal, Infant and Child Deaths Between 2000 and 2017. Published 16 October 2019. Nature Website
• Li, Z, Hsiao, Y., Godwin, J., Martin, B., Wakefield, J. and Clark. (2019). Changes in the Spatial Distribution of the Under-Five Mortality Rate: Small-area Analysis of 122 DHS Surveys in 262 Subregions of 35 Countries in Africa. PLoS One. Published: January 22, 2019. Paper available at PLoS One Website

2018

• Tarr, G.A.M., Shringi, S., Oltean, H.N., Mayer, J., Rabinowitz, P. Wakefield, J., Tarr, P.I., Besser, T.E. and Phipps, A.I. (2018). Importance of case age in the purported association between phylogenetics and hemolytic uremic syndrome in Escherichia coli O157:H7 infections. Epidemiology and Infection, 146, 1550-1555.
• Cohen-Cline, H., Beresford, S.A.A., Barrington, W., Matsueda, R., Wakefield, J. and Duncan, G.E. (2018).
Associations between social capital and depression: A study of adult twins. Health and Place, 50, 162-167.
• Clark, S.J., Wakefield, J., McCormick, T. H. and Ross, M. (2018). Hyak mortality monitoring system: Innovative sampling and estimation methods - Proof of concept by simulation. Global Health, Epidemiology and Genomics. 3, 1-14. Paper
• Bauer, C. and Wakefield, J. (2018). Stratified space-time infectious disease modeling: with an application to hand, foot and mouth disease in China. Journal of the Royal Statistical Society, Series A, 67, 1379-1398. Paper and Supplement
• Cohen-Cline, H., Beresfrd, S., Barrington, W.E., Matsueda, R.L., Wakefield, J. and Duncan, G.E. (2018). Associations between neighbourhood characeteristics and depression: a twin study. Journal of Epidemiology and Community Health, 72, 202-207. Paper

2017

• Tarr, G.A.M., Shringi, S., Phipps. A.I., Besser, T.E., Mayer, J., Oltean, H.M., Wakefield, J. Tarr, and Rabinowitz, P. (2017). Geogenomic segregation and temporal trends of human pathogenic Escherichia coli O157:H7, Washington, USA, 2005-2014. Emerging Infectious Diseases, 24. Paper
• Psoter, K.J., De Roos A.J., Wakefield J., Mayer J.D. and Rosenfeld, M. (2017). Seasonality of acquisition of respiratory bacterial pathogens in young children with cystic fibrosis. BMC Infect Dis, 17, 411. Paper
• Fintzi, J., Cui, X., Wakefield, J. and Minin, V.N. (2017). Efficient data augmentation for fitting stochastic epidemic models to prevalence data, Journal of Computational and Graphical Statistics, 26, 918-929. Paper and Supplement
• McCoy, R.C, Wakefield, J. and Akey, J.M. (2017). Impacts of Neanderthal-Introgressed sequences on the landscape of human gene expression. Cell, 168, 916-927. Paper and Supplement
• Skinner, C. and Wakefield, J. (2017). Introduction to the design and analysis of complex survey design. Statistical Science, 32, 165-175. Paper
• Fisher, L., Wakefield, J., Bauer, C. and Self, S. (2017). Time series modeling of pathogen-specific disease probabilities with incomplete data. Biometrics, 73, 283-293. Paper and Supplement and Code

2016

• Wakefield, J., Simpson, D. and Godwin, J. (2016). ``Comment: Getting into space with a weight problem". Discussion of, ``Model-based geostatistics for prevalence mapping in low-resource settings", by P.J. Diggle and E. Giorgi. Journal of the American Statistical Association, 111, 1111-1119. Arxiv link here.
• Smith, T.R. and Wakefield, J. (2016). A review and comparison of age-period-cohort models for cancer incidence. Statistical Science, 31, 591-610. Paper
• Koepke, A.A., Longini, I.M., Halloran, M.E., Wakefield. J. and Minin, V.N. (2016). Predictive modeling of cholera outbreaks in Bangladesh. The Annals of Applied Statistics, 10, 575-595.
• Liang, P.S., Mayer, J.D., Wakefield, J. and C.W., Ko (2016). Temporal trends in geographic and sociodemographic disparities in colorectal cancer, 1973-2010. The Journal of Rural Health, Published 31 August 2016.
• Song, L., Mercer, L., Wakefield, J., Laurent, A. and Solet, D. (2016). Using small-area estimation to calculate the prevalence of smoking by subcounty geographic areas in King County, Washington, Behavioral Risk Factor Surveillance System, 2009-2013. Preventing Chronic Disease: Public Health Research, Practice and Policy, Published May 5 2016.
• Vernot, B., Tucci, S., Kelso, J., Schraiber, J., Wolf, A.B, Gittelman, R.M., Dannemann, M., Grote, S., McCoy, R.C., Norton, H., Scheinfeldt, L.B., Merriwether, D.A., Koki, G., Friedlaender, J.S., Wakefield, J., Paabo, S. and Akey, J.M. (2016). Excavating Neandertal and Denisovan DNA from the genomes of Melanesian individuals. Science, Published May 17, 2016.
• Kim, A. and Wakefield, J. (2016). Bayesian method for cluster detection with application to five cancer sites in Puget Sound. Epidemiology, 27, 347-55.

2015

• Akullian, A., Ng'eno, E., Matheson, A.I., Macharia, D., Leonard, C., Bigogo, G., Stewart, G., Walson, J., Wakefield, J. and Montgomery, J.M. (2015). Environmental transmission of typhoid fever in an urban slum. PLOS Neglected Tropical Diseases, 9. Published December 3, 2015. Article can be found here.
• Schaafsma, T., Wakefield, J., Hanisch, R., Bray, F., Schuz, J., Joy, E.J.M., Watts, M.J. and McCormack, V. (2015). Micronutrient intake and the African esphagael cancer belt - ecological insights. PLOS ONE, 10.
• Psoter, K.J., De Roos, A.J., Wakefield, J., Mayer, J.Di., Bryan, M., Rosenfeld, M. (2015). Association of meteorologic and geographic factors and risk of initial Pseudomonas aeruginosa acquisition in young children with cystic fibrosis. Epidemiology and Infection. 144, 1075-83.
• Chen, C., Wakefield, J., Self, S. and Rue, H. (2015). Bayesian penalized spline models for the analysis of spatio-temporal count data. Statistics in Medicine, 35, 1848-1865.
• Mercer, L., Wakefield, J., Pantazis, A., Lutambi, A., Masanja, H. and Clark, S. (2015). Small area estimation of child mortality in the absence of vital registration. The Annals of Applied Statistics, 9, 1889-1905. Paper is here.
• Ross, M.E. and Wakefield, J. (2015). Bayesian hierarchical models for smoothing in two-phase studies, with application to small area estimation. Journal of the Royal Statistical Society, Series A, 178, 1009-1023.
• Smith, T., Wakefield, J. and Dobra, A. (2015). Restricted covariance priors with application in spatial statistics. Bayesian Analysis, 10, 965-990. Paper

2014

• Andrie, J.M., Wakefield, J. and Akey, J.M. (2014). Heritable variation of mRNA decay rates in yeast. Genome Research, 24, 2000-2010.
• Chen, C., Wakefield, J. and Lumley, T. (2014). The use of sampling weights in Bayesian hierarchical models for small area estmation. Spatial and Spatio-temporal Epidemiology, 11, 33-43. Paper and Supplement
• Akullian, A, Kohler, P., Kinuthia, J., Laserson, K., Mills, L.A., Okanda, J., Olilo, G., Ombok, M., Odhiambo, F., Rao, D., Wakefield, J. and John-Stewart, G. (2014). Geographic distribution of HIV stigma among women of childbearing age in rural Kenya. AIDS, 28, 1665-1672.
• Mercer, L., Wakefield, J., Chen, C. and Lumley, T. (2014). A Comparison of spatial smoothing weighting methods for small area estimation. Spatial Statistics, 8, 69-85. Paper
• Connelly, C.F., Wakefield, J. and Akey, J.M. (2014). Evolution and genetic architecture of chromatin accessibility and function in yeast. PLoS Genetics, Published July 3, 2014.
• Psoter, K, Rosenfeld, M., DeRoos, A.J., Mayer, J.D. and Wakefield, J. (2014). Differential geographical risk of initial Pseudomonas aeruginosa acquisition in young U.S. children with cystic fibrosis. American Journal of Epidemiology, 179, 1503-1513.
• Wakefield, J.C., Skrivankova, V., Hsu, F.-C., Sale, M. and Heagerty, P. (2014). Detecting signals in pharmacogenomic studies. The Pharmacogenomics Journal. Published online January, 2014.
• Glynn, A. and Wakefield, J. (2014). Alleviating ecological bias in Poisson models using optimal subsampling: The effects of Jim Crow on black illiteracy in the Robinson data". Sociological Methodology, 44, 159-184.

2013

• Skelly, D.A., Merrihew, G.E., Riffle, M., Connelly, C.F., Kerr, E.O., Johansson, M., Jaschob, D., Graczyk, B., Shulman, N.J., Wakefield, J., Cooper, S.J., Field, S., Noble, W.S. Muller, E.G., Davis, T.N., Dunham, M.J., Maccoss, M.J. and Akey, J.M. (2013). Integrative phemomics reveals insight into the structure of phenotypic diversity in budding yeast. Genome Research, 23, 1496-1504.
• Psoter, K.J., de Roos, A.J, Wakefield, J., Mayer, J.D. and Rosenfeld, M. (2013). Season is associated with Pseudomonas aeruginosa acquisition in young children with cystic fibrosis. Clinical Microbiology and Infection. , 19, E483-E489.
• Zheng, Z., Shen, J., Cox, C., Wakefield, J.C., Ehm, M.G., Nelson, M.R. and Weir, B.S. (2013). HIBAG - HLA genotype imputation with attribute bagging. The Pharmacogenomics Journal, published online May 2013.
• Shaddick G., Lee D. and Wakefield J. (2013). Ecological bias in studies of the short-term effects of air pollution on health. International Journal of Applied Earth Observation and Geoinformation, 22, 65-74.
• Wakefield, J. and Kim, A. (2013). A Bayesian model for cluster detection. Biostatistics, 14, 752-765.
• Hoff, P. and Wakefield, J. (2013). A Bayesian sandwich estimator. To appear in Journal of Statistical Planning and Inference (as a discussion of Stephen Walker's "Bayesian inference with misspecified models").
• Ross, M.E. and Wakefield, J.C. (2013). Bayesian inference for two-phase studies with categorical covariates. Biometrics, 69, 469-477.
• Islami, F.,...,Wakefield, J. ... (2013). Smoking water-pipe, chewing nass, and prevalence of heart disease -- A cross-sectional analysis of baseline data from the Golestan cohort study, Iran. Heart , 99, 272--278.

2012

• Fong, Y., Wakefield, J., De Rosa, S. and Frahm, N. (2012). A robust Bayesian random effects model for nonlinear calibration problems. Biometrics, 68, 1103--1112.
• Johansson, M.,...,Wakefield, J. and Mckay, J.D. (2012). Using prior information from the medical literature in GWAS of oral cancer identifies novel susceptibility variant on chromosome 4 - the AdAPT method. PLoS One, 7, e36888.
• de Vocht, F., Cherry, N. and Wakefield, J (2012). A Bayesian mixture modeling approach for assessing the effects of correlated exposures in case-control studies. Journal of Exposure Science and Environmental Epidemiology, 22, 352-360.
• Fong, Y., Wakefield, J. and Rice, K. (2012). An efficient Markov chain Monte Carlo method for mixture models by neighborhood pruning. Journal of Computational and Graphical Statistics, 21, 197-216.

2011

• Skelly, D.A., Johansson, M., Madeoy, J., Wakefield, J. and Akey, J.M. (2011). A powerful and flexible statistical framework for testing hypotheses of allele-specific gene expression from RNA-Seq data. Genome Research, 21, 1728-1737. Paper can be accessed here
• Wang, Y., Feng, Z., Yang, Y., Self, S., Gao, Y., Longini, I.M., Wakefield, J., Zhang, J., Wang, L., Chen, C., Yao, L., Stanaway, J.D., Wang, Z. and Yang, W. (2011). Hand, foot and mouth disease in China: patterns of spread and transmissibility during 2008-2009. Epidemiology, 22, 781-792.
• Wakefield, J., Haneuse, S., Dobra, A. and Teeple, E. (2011). Bayes computation for ecological inference. Statistics in Medicine, 30, 1381-1396.

2010

• Ross, M.E., Wakefield, J., Davis, S. and De Roos, A.J (2010). Spatial clustering of myelodysplastic syndromes (MDS) in the Seattle-Puget sound region of Washington State. Cancer Causes Control, 21, 829-838.
• Wakefield, J. (2010). Bayesian methods for examining Hardy-Weinberg equilibrium. Biometrics, 66, 257-265.
• Glynn, A. and Wakefield (2010). Ecological inference in the social sciences. Statistical Methodology, 7, 307-322.
• Fong, Y., Rue, H. and Wakefield, J. (2010). Bayesian inference for generalized linear mixed models. Biostatistics, 11, 397-412.
• Fong, Y., Wakefield, J, and Rice, K. (2010). Bayesian mixture modeling using a hybrid sampler with application to protein subfamily identification. Biostatistics, 11, 18-33.
• Wakefield, J., de Vocht, F. and Hung, R.J. (2010). Bayesian mixture modeling of gene-environment and gene-gene interactions. Genetic Epidemiology, 34, 16-25.

2009

• Islami, F., Malekshah, A.F., Kimiagar, M., Pourshams, A., Wakefield, J., et al. (2009). Patterns of food and nutrient consumption in Northern Iran, a high-risk area for esophageal cancer, Nutrition and Cancer, 61, 475-483.
• Wakefield, J. (2009). Multi-level modelling, the ecologic fallacy, and hybrid study designs, International Journal of Epidemiology, 38, 330-336. Illiteracy data Paper WinBUGS code
• Islami, F., Kamangar, F., Nasrollahzadeh, D., Aghcheli, K., Sotoudeh, M., Abedi-Ardekani, B., Merat, S., Nasseri-Moghaddam, S., Semnani, S., Sepehr, A., Wakefield, J., et al. (2009). Socio-economic status and oesophageal cancer: results from a population-based case-control study in a high-risk area. International Journal of Epidemiology, 38, 978-988.
• Wakefield, J. (2009). Bayes factors for genome-wide association studies: comparison with p-values. Genetic Epidemiology, 33, 79-86.

2008

• Salway, R.E. and Wakefield, J. (2008). Gamma generalized linear models for pharmacokinetic data. Biometrics, 64, 620-626.
• Wakefield, J. (2008). Ecologic studies revisited. Annual Review of Public Health 29, 75-90. annrev08.pdf
• Wakefield, J. (2008). Reporting and interpretation in genome-wide association studies. International Journal of Epidemiology. wakefieldIJE.pdf 37, 641-653.
• Wakefield, J. and Haneuse, S. (2008). Overcoming ecological bias using the two-phase study design. American Journal of Epidemiology, 167, 908-916 wakefieldhaneuseAJE.pdf
• McKay, J.D. Hashibe, M, Hung, R.J., Wakefield, J., et al. (2008). Sequence Variants of NAT1 and NAT2 and Other Xenometabolic Genes and Risk of Lung and Aerodigestive Tract Cancers in Central Europe. Cancer Epidemiology and Biomarkers, 17, 141-147.
• Haneuse, S. and Wakefield, J. (2008). The combination of ecological and case-control data. Journal of the Royal Statistical Society, Series B, 70, 73-93 haneusewakefieldRSSB.pdf.
• Glynn, A., Wakefield, J., Handcock, M. and Richardson, T.S. (2008). Alleviating linear ecological bias and optimal design with subsample data. Journal of the Royal Statistical Society, Series A 171, 179-202. glynnetalRSSA.pdf.
• Li, S., Wakefield, J. and Self, S.G. (2008). A Trans-dimensional Bayesian model for pattern recognition in DNA sequence. Biostatistics, 9, 668-685.
• Salway, R. and Wakefield, J. (2007). A hybrid model for reducing ecological bias. Biostatistics. 9, 1-17. Paper can be found here.
• Haneuse, S. and Wakefield, J. (2007). Geographic-based ecological correlation studies using supplemental case-control data. Statistics in Medicine, 27, 864-887.

2007

• Wakefield, J. (2007). A Bayesian measure of the probability of false discovery in genetic epidemiology studies. American Journal of Human Genetics, 81, 208-227 Paper can be found here.
• Elliott, P., Shaddick, G., Wakefield, J., de Hoogh, C. and Briggs, D.J. (2007). Long-term associations of outdoor air pollution with mortality in Great Britain. Thorax, 62, 1088-1094. thorax2007.pdf
• Haneuse, S., Wakefield, J. and Sheppard, L. (2007). The interpretation of exposure effect estimates in chronic air pollution studies. Statistics in Medicine, 26, 3172-3187. Paper can be found here.
• Haneuse, S. and Wakefield, J. (2007). Hierarchical models for combining ecological and case-control data. Biometrics, 63, 128-136. Paper can be found here.
• Wakefield, J. (2007). Disease mapping and spatial regression with count data. Biostatistics, 8, 158-183. Paper can be found here.

2006

• Wakefield, J. and Shaddick, G. (2006). Health-exposure modelling and the ecological fallacy. Biostatistics, 7, 438-455. Paper can be found here.
• Zhou, C. and Wakefield, J. (2006). A Bayesian hierarchical mixture model for curve partitioning. Biometrics, 62, 515-526, Bugs Code
• Gordian, M.E., Haneuse, S. and Wakefield, J. (2006). An investigation of the association between traffic exposure and the diagnosis of asthma. Journal of Exposure Science and Environmental Epidemiology, 16, 49-55.
• Hawkins, N., Self, S. and Wakefield, J (2006). The automated counting of spots for the ELISpot assay. Journal of Immunological Methods, 316, 52-58.Paper can be found here.

2005

• Whitaker, H., Best. N., Nieuwenhuijsen, M., Wakefield, J., Fawell, J. and Elliott, P. (2005). Modelling exposure to disinfection by-products in drinking water for an epidemiological study of adverse birth outcomes. Journal of Exposure Analysis and Environmental Epidemiology, 15, 138-146.
• Dabney, A. and Wakefield, J.C. (2005). Issues in the mapping of two diseases. Statistical Methods in Medical Research, 14, 83-112.alan.pdf
• Salway, R. and Wakefield, J.C. (2005). Sources of bias in ecological studies of non-rare events. Environmental and Ecological Statistics, 12, 321-347.eesruth.pdf

2004

• Bottle, R.A. and Wakefield, J.C. (2004). Statistical issues in relation to the modeling of respiratory disease in relation to cokeworks. Statistics in Medicine, 23, 3139-3158. alex.pdf
• Wakefield, J. (2004). Ecological inference for 2x2 tables (with discussion). Journal of the Royal Statistical Society, Series A, 167, 385-445. read.pdf. Data can be found here.
• Wakefield, J. (2004). A critique of statistical aspects of ecological studies in spatial epidemiology. Environmental and Ecological Statistics, 11, 31-54. ees.pdf

2003

• Wakefield, J., Zhou, C. and Self, S. (2003). Modelling gene expression over time: curve clustering with informative prior distributions. Bayesian Statistics 7, Proceedings of the Seventh Valencia International Meeting, p. 721-732, Bernardo, J.M., Bayarri, M.J., Berger, J.O., Dawid, A.P., Heckerman, Smith, A.F.M., West, M. (editors), Oxford University Press. newval.pdf
• Wakefield, J. (2003). Sensitivity analyses for ecological regression. Biometrics, 59, 9-17. biometrics.pdf
• Hickman, M., Madden, P., Henry, J., Baker, A., Wallace, C., Wakefield, J., Stimson, G. and Elliott, P. (2003). Trends in drug overdose deaths in England and Wales 1993-98: methadone does not kill more people than heroin. Addiction, 98, 41-425.

2002

• Guthrie, K.A., Sheppard, L. and Wakefield, J. (2002). A hierarchical aggregate data model with spatially correlated disease rates. Biometrics, 58, 898-905. biomkath.pdf
• Kelsall, J.E. and Wakefield, J.C. (2002). Modeling spatial variation in disease risk: A geostatistical approach. Journal of the American Statistical Association, 97, 692-701.
• Shaddick, G. and Wakefield, J. (2002). Modelling multivariate pollutant data at multiple sites. Applied Statistics, 51, 351-372. appliedstats.pdf
• Lunn, D.J., Best, N., Thomas, A., Wakefield, J. and Spiegelhalter, D. (2002). Bayesian analysis of population PK/PD models: General concepts and software. Journal of Pharmacokinetics and Pharmacodynamics, 29, 271-307.
• Jarup, L., Toledano, M.B., Best, N., Wakefield, J., Elliott P. (2002). Geographical epidemiology of prostate cancer in Great Britain. International Journal of Epidemiology, 97, 695-699.
• Jarup, L., Briggs, D., de Hoogh, C., Morris, S., Hurt, C., Lewin, A., Maitland, I., Richardson, S., Wakefield, J., Elliott, P. (2002). Cancer risks in populations living near landfill sites in Great Britain, British Journal of Cancer, 86, 1732-1736.

2001

• Lunn, D.J., Wakefield, J.C. and Racine, A. (2001). Cumulative logit models for ordinal data: a case study involving allergic rhinitis severity scores. Statistics in Medicine, 20, 2261-2285.
• Elliott, P., Briggs,D., Morris, S., de Hoogh, C., Hurt, C., Jensen, T., Maitland, I., Richardson, S., Wakefield, J. and Jarup, L. (2001) Risk of adverse birth outcomes in populations living near landfill sites. British Medical Journal, 323, 363-368.
• Bennett, J.E. and Wakefield, J.C. (2001) Errors-in-variables in joint population pharmacokinetic/pharmacodynamic modeling. Biometrics, 57, 803-812.
• Aylin, P., Bottle, A., Wakefield, J., Jarup, L., Elliott, P. (2001). Proximity to coke works and hospital admissions for respiratory and cardiovascular disease in England and Wales. Thorax, 56, 228-233.
• Wakefield, J.C. and Morris, S.E. (2001). The Bayesian modeling of disease risk in relation to a point source. Journal of the American Statistical Association, 96, 77-91.
• Elliott, P. and Wakefield, J. (2001). Disease clusters: should they be investigated, and if so, when and how? Journal of the Royal Statistical Society, Series A, 164, 3-12.
• Wakefield, J. and Salway, R. (2001). A statistical framework for ecological and aggregate studies. Journal of the Royal Statistical Society, Series A, 164, 119-137.
• Aylin, P., Morris, S., Wakefield, J., Grossinho, A., Jarup, L., Elliott, P. (2001). Temperature, housing, deprivation and their relationship to excess winter mortality in Great Britain, 1986-1996. International Journal of Epidemiology, 30, 1100-1108.
• Best, N., Cockings, S., Bennett, J., Wakefield, J. and Elliott, P. (2001). Ecological regression analysis of environmental benzene exposure and childhood leukemia: sensitivity to data inaccuracies, geographical scale and ecological bias. Journal of the Royal Statistical Society, Series A, 164, 155-174.
• Toledano, M., Jarup, L., Best, N., Wakefield, J.C, Elliott P. (2001). Spatial and temporal trends of testicular cancer in Great Britain. British Journal of Cancer, 84, 1482-1487.

2000

• Pascutto, C., Wakefield, J., Best, N., Bernardinelli, L., Elliott, P., Richardson, S. and Staines, A. (2000). Statistical issues in the analysis of disease mapping data. Statistics in Medicine, 19, 2493-2519.
• Wakefield, J.C. and Rahman, N. (2000). The combination of population pharmacokinetic studies. Biometrics, 56, 263-270.
• Morris, S.E., Sale, R., Wakefield, J.C., Falconer, S., Elliott, P. and Boucher, B.J. (2000). Hospital admissions for asthma and chronic obstructive airways disease in east London hospitals and proximity to major roads. Journal of Epidemiology and Community Health, 54, 75-76.
• Elliott, P., Arnold, R., Cockings, S., Eaton, N., Jarup, L., Jones, J., Quinn, M., Rosato, M., Thornton, I., Toledano, M., Tristan, E., Wakefield, J. (2000). Risk of mortality, cancer incidence and stroke in a population potentially exposed to cadmium. Occupational and Environmental Medicine, 57, 94-97.
• Diggle, P.J., Morris, S.E. and Wakefield, J.C. (2000). Point source modelling using matched case-control data. Biostatistics, 1, 89-105.

1999

• Pauler, D.K., Wakefield, J.C. and Kass, R.E. (1999). Bayes factors for variance component models. Journal of the American Statistical Association, 94, 1242-1253.
• Wakefield, J.C. and Morris, S.E. (1999). An application of spatial errors-in-variables modelling: investigating the relationship between ischaemic heart disease and water constituents. Bayesian Statistics 6, Proceedings of the Sixth Valencia International Meeting, Bernardo, J.M., Berger, J.O., Dawid, A.P. and Smith, A.F.M. (editors), p. 657-684, Oxford University Press.
• Sheiner, L. and Wakefield, J. (1999), Population modelling in drug development, Statistical Methods in Medical Research, 8, 183-193.
• Rahman, N.J., Wakefield, J.C., Stephens, D.A. and Falcoz, C. (1999), Parameter estimation, model adequacy and assessment of dose proportionality for pivotal pharmacokinetic study, Statistical Methods in Medical Research, 8, 195-216.
• Best, N.G. and Wakefield, J.C. (1999). Accounting for inaccuracies in populations counts and case registration in cancer mapping studies. Journal of the Royal Statistical Society, Series A, 162, 363-382.
• Wakefield, J.C. and Elliott, P. (1999). Issues in the statistical analysis of small-area health data. Statistics in Medicine, 18, 2377-2399.
• Aylin P, Maheswaran R, Wakefield J, Cockings S, Jarup L, Arnold R, Wheeler G, Elliott P. (1999). A national facility for small area disease mapping and rapid initial assessment of apparent disease clusters around a point source: the UK Small Area Health Statistics Unit. Journal of Public Health Medicine, 21, 289-98.
• Damien, P., Wakefield, J.C. and Walker, S.G. (1999). Gibbs sampling for Bayesian nonconjugate and hierarchical models using auxiliary variables. Journal of the Royal Statistical Society, Series B, 61, 331-344.
• Maheswaran, R., Morris, S.E., Falconer, S., Grossinho, A., Wakefield, J.C. and Elliott, P. (1999). Magnesium in drinking water supplies and mortality from acute myocardial infarction in North West England. Heart, 82, 455-460.

1998

• Racine-Poon, A. and Wakefield, J.C. (1998). Statistical methods for population pharmacokinetic modelling, Statistical Methods in Medical Research, 7, 63-84.
• Walker, S.G. and Wakefield, J.C. (1998). Population models with a nonparametric random coefficient distribution. Sankhya, Series B, 60, 196-212.
• Wakefield, J.C. (1998). The United Kingdom Small Area Health Statistics Unit. Journal of Japan Society for Atmospheric Environment, 33, A60-A66.

1997

• Wakefield, J.C. and Walker, S.G. (1997). Bayesian nonparametric population models: formulation and comparison with likelihood approaches. Journal of Pharmacokinetics and Biopharmaceutics, 25, 235-253.
• Bennett, J.E., Wakefield, J.C. and Lacey, L.F. (1997). Modelling of trough plasma bismuth concentrations. Journal of Pharmacokinetics and Biopharmaceutics, 25, 79-106.
• Wakefield, J.C. and Walker, S.G. (1997). A population approach to initial dose selection. Statistics in Medicine, 16, 1135-1149.

1996

• Walker, S.G. and Wakefield, J.C. (1996). Bayesian approaches to the population modelling of a monotonic dose-response relation. Bayesian Statistics 5, Proceedings of the Sixth Valencia International Meeting, Bernardo, J.M., Berger, J.O., Dawid, A.P. and Smith, A.F.M. (editors), Oxford University Press.
• Wakefield, J.C. (1996). The Bayesian approach to population pharmacokinetic models. Journal of the American Statistical Association, 91, 61-76.
• Wakefield, J.C. (1996). Bayesian individualization via sampling-based methods. Journal of Pharmacokinetics and Biopharmaceutics, 24, 103-131.

1990-1995

• Wakefield, J.C. and Racine-Poon, A. (1995). An application of Bayesian population pharmacokinetic/ pharmacodynamic models to dose recommendation, Statistics in Medicine, 14, 971-986.
• Smith, A.F.M. and Wakefield, J.C. (1994). The hierarchical Bayesian approach to population pharmacokinetic modelling. International Journal of Bio-Medical Computing, 36, 35-42.
• Wakefield, J.C. (1994). An expected loss approach to the design of dosage regimens via sampling-based methods. The Statistician, 43, 13-29.
• Wakefield, J.C., Smith, A.F.M., Racine-Poon, A. and Gelfand, A.E. (1994). Bayesian analysis of linear and non-linear population models using the Gibbs sampler. Applied Statistics, 43, 201-221.
• Wakefield, J. C., Gelfand, A. E. and Smith, A. F. M. (1991). Efficient generation of random variates via the ratio-of-uniforms method. Statistics and Computing, 1, 129-133.
• Wakefield, J. C., Skene, A. M., Smith, A. F. M. and Evett, I. W. (1991). The evaluation of fibre transfer evidence in forensic science: a case study in statistical modelling. Applied Statistics, 40, 461-476.
• Skene, A. M., and Wakefield, J. C. (1990). Hierarchical models for multi-centre binary response studies. Statistics in Medicine, 9, 919-929.

Book Chapters

2016

• Wakefield, J. and Smith, T. (2016). Ecological modeling: general issues. In Handbook of Spatial Epidemiology editors A. Lawson, S. Banerjee, R.P. Haining and M.D. Ugarte. CRC Press.

2010

• Wakefield, J. and Lyons, H. (2010). Spatial aggregation and the ecological fallacy. In Handbook of Spatial Statistics editors A. Gelfand, P. Diggle, P. Guttorp, M. Fuentes, CRC Press.

2008

• Wakefield, J. (2008) Geographical disease risk. In Encycloperdia of Quantitative Risk Assessment and Analysis editors E. Melnick and B. Everitt, pages 744-748, John Wiley and Sons Ltd, Chichester, UK.

2006

• Zhou, C., Wakefield, J. and Breeden, L. (2006). Bayesian analysis of cell cycle gene expression data, in "Bayesian Inference for Gene Expression and Proteomics", Marina Vannucci, Kim Anh Do and Peter Muller (editors), Cambridge University Press.
• Wakefield, J. (2006). Sensitivity Analysis. Encyclopedia of Statistics in Behavioral Science, edited by Brian Everitt and David Howell. article.pdf

2004

• Wakefield, J. (2004). Non-linear regression modelling. In Methods and Models in Statistics: In Honor of Professor John Nelder, FRS, p. 119-153, Edited by Niall Adams, Martin Crowder, David J. Hand and Dave Stephens. Imperial College Press.nelder.pdf
• Wakefield, J. (2004). Prior and likelihood choices in the analysis of ecological data. To appear in Ecological Inference: New Methodological Strategies, p. 13-50, edited by Gary King, Ori Rosen, and Martin Tanner, Cambridge University Press. main.pdf The complete book is here
• Haneuse, S. and Wakefield, J. (2004). Ecological inference allowing for spatial dependence. In Ecological Inference: New Methodological Strategies , p. 266-301 edited by Gary King, Ori Rosen, and Martin Tanner, Cambridge University Press. haneuse.pdf The complete book is here
• Salway, R. and Wakefield, J. (2004). A comparison of approaches to ecological inference in epidemiology, political science and sociology. In Ecological Inference: New Methodological Strategies , p. 303-332, edited by Gary King, Ori Rosen, and Martin Tanner, Cambridge University Press.salway.pdf The complete book is here

2002

• Wakefield, J.C. (2002). Multicollinearity. Encyclopedia of Environmetrics, Volume 3, editors A.H. El-Shaarawi and W.W. Piegorsch John Wiley, New York, 1308-1311.

2000

• Pauler, D.K. and Wakefield, J.C. (2000). Issues in the modeling and implementation of Bayesian meta-analyses. Meta-Analysis in Medicine and Health Policy, Stangl, D. and Berry, D.A. (Editors), 205-230. Marcel Dekker, New York and Basel.
• Rahman, N. and Wakefield, J.C. (2000). Meta-analysis of population pharmacokinetic data. Meta-Analysis in Medicine and Health Policy, Stangl, D. and Berry, D.A. (Editors), 231-253. Marcel Dekker, New York and Basel.
• Elliott, P., Wakefield, J.C., Best, N.G. and Briggs, D. (2000). Spatial Epidemiology: Methods and Applications. In Spatial Epidemiology: Methods and Applications. Elliott, P., Wakefield, J.C., Best, N.G. and Briggs, D. (editors), 3-14, Oxford University Press.
• Arnold, R.A., Diamond, I. and Wakefield, J.C. (2000). The use of population denominator data in spatial epidemiology. Spatial Epidemiology: Methods and Applications. Elliott, P., Wakefield, J.C., Best, N.G. and Briggs, D. (editors), 30-50, Oxford University Press.
• Elliott, P. and Wakefield, J.C. (2000). Bias and confounding in spatial epidemiology. Spatial Epidemiology: Methods and Applications. Elliott, P., Wakefield, J.C., Best, N.G. and Briggs, D. (editors), 68-84, Oxford University Press.
• Wakefield, J.C., Best, N.G. and Waller, L.A. (2000). Bayesian approaches to disease mapping. Spatial Epidemiology: Methods and Applications. Elliott, P., Wakefield, J.C., Best, N.G. and Briggs, D. (editors), 104-127, Oxford University Press.
• Wakefield, J.C., Kelsall, J.E. and Morris, S.E. (2000). Clustering, cluster detection, and spatial variation in risk. Spatial Epidemiology: Methods and Applications. Elliott, P., Wakefield, J.C., Best, N.G. and Briggs, D. (editors), 128-152, Oxford University Press.
• Morris, S.E. and Wakefield, J.C. (2000). Assessing of disease risk in relation to a pre-specified source. Spatial Epidemiology: Methods and Applications. Elliott, P., Wakefield, J.C., Best, N.G. and Briggs, D. (editors), 152-184, Oxford University Press.

1999

• Wakefield, J. (1999). Generalized linear models in spatial epidemiology. In Statistical Modelling, Proceedings of the 14th International Workshop on Statistical Modelling, p. 81-92, editors Friedl, H., Bergold, G. and Kauermann, G., IWSM.
• Wakefield, J.C. and Wallace, C. (1999). Implications of estimated counts for small-area studies of environment and health. In Population Counts in Small Areas, Arnold, A., Elliott, P., Wakefield, J. and Quinn, M. (editors), p. 63-73, Studies on Medical and Population Subjects, Office of Population Censuses and Surveys, Office for National Statistics.
• Wakefield, J.C., Aarons, L. and Racine-Poon, A. (1999). The Bayesian approach to population pharmacokinetic/pharmacodynamic modeling. Case Studies in Bayesian Statistics, Gatsonis, C., Kass, R.E., Carlin, B.P., Carriquiry, A.L., Gelman, A., Verdinelli, I. and West, M. (editors), p.205-265, Springer-Verlag, New York. Paper is here
• Elliott, P. and Wakefield, J.C. (1999). Small-area studies of environment and health. Statistics for the Environment 4: Health and the Environment, Barnett, V., Stein, A. and Turkman, K.F. (editors), p. 3-27, John Wiley, New York.

1997

• Wakefield, J.C. (1997). Hierarchical regression models. Encyclopedia of Statistical Science, Update Volume 1, 313-318, Kotz, S., Read, C.B. and Banks, D.L. (editors), John Wiley, New York.
• Wakefield, J.C. (1997). The use of predictive distributions in drug development. In European Cooperation in the Field of Scientific and Technical Research. The Population Approach: Measuring and Managing Response, Concentration and Dose. p. 353-362, Geneva, Switzerland.

1996

• Walker, S.G. and Wakefield, J.C. (1996). Bayesian approaches to the population modelling of a monotonic dose-response relation.
• Racine-Poon, A. and Wakefield, J.C. (1996). Bayesian analysis of population pharmacokinetic and instantaneous pharmacodynamic relationships. Bayesian Biostatistics, Berry, D.A. and Stangl, D.K. (editors), p. 355-387, Marcel Dekker, New York and Basel.
• Bennett, J.E., Racine-Poon, A. and Wakefield, J.C. (1996). Markov chain Monte Carlo for nonlinear hierarchical models. Markov Chain Monte Carlo in Practice, Gilks, W.R., Richardson, S. and Spiegelhalter, D. J. (editors), p. 339-357, Chapman and Hall, London.

Book: Bayesian and Frequentist Regression Methods

Published by Springer, January 2013.  

Book details, reviews, code, errata, etc... >

Funding

My research support includes the following:

• NIH/NCI R01: Spatio-Temporal Epidemiology: Methods and Applications (PI: Jon Wakefield)
• NIH/NIAID R01: Statistical Issues in AIDS Research (PI: Jim Hughes)
• NIH/NIGMS U54: Center for Statistics and Quantitative Diseases (PI: Betz Halloran)