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Peruggia M.  2007.  Bayesian Model Diagnostics Based on Artificial Autoregressive Errors. Bayesian Analysis. 2:817-842.
Peruggia M.  2007.  Bayesian Model Diagnostics Based on Artificial Autoregressive Errors. (This is a synopsis of the 2007 Bayesian Analysis article by the same title.). Bayesian Statistics 8. :659–654.
Yu Q, MacEachern SN, Peruggia M.  Submitted.  Bayesian synthesis. Annals of Applied Statistics.
MacEachern SN, Peruggia M.  2002.  Bayesian tools for EDA and model building: a brainy study. Case Studies in Bayesian Statistics. 5:345-362.
Guha S, MacEachern SN, Peruggia M.  2004.  Benchmark estimation for Markov chain Monte Carlo samples. Journal of Computational and Graphical Statistics. 13:683-701.
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Peruggia M, Hsu JC, Huang Y.  Submitted.  Cartesian Displays of Many Interval Estimates. The American Statistician.
Epifani I, MacEachern S, Peruggia M.  2008.  Case-Deletion Importance Sampling Estimators: Central Limit Theorems and Related Results. Electronic Journal of Statistics. 2:774-806.
Suratt P, Peruggia M, D'Andrea L, Diamond R, Barth J, Nikova-Draguleva M, Perriello V, Johnson M.  2006.  Cognitive Function and Behavior in Children with Adenotonsillar Hypertrophy Suspected of Having Obstructed Sleep Disordered Breathing. Pediatrics. 118:e771-e781.
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Peruggia M, Santner TJ, Ho Y-Y.  2004.  Detecting Stage-Wise Outliers in Hierarchical Bayesian Linear Models of Repeated Measures Data. Annals of the Institute of Statistical Mathematics. 56:415-433.
Craigmile PF, Peruggia M, Van Zandt T.  2010.  Detrending Response Time Series, in "Statistical methods for modeling human dynamics: An interdisciplinary dialogue", Notre Dame Series on Quantitative Methology. New York, NY: Taylor and Francis. 4
MacEachern SN, Guha S, Peruggia M.  2003.  Discussion of A theory of statistical models for Monte Carlo integration, by Kong, McCullagh, Nicolae, Tan and Meng. Journal of the Royal Statistical Society, B. 65:622.
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Craigmile PF, Peruggia M, Van Zandt T.  In Press.  Hierarchical Bayes Models for Response Time Data. Psychometrika.
Nass R, Gilrain J, Anderson S, Gaylinn B, Dalkin A, Day R, Peruggia M, Thorner MO.  2000.  High plasma growth hormone (GH) levels inhibit expression of GH secretagogue receptor messenger ribonucleic acid levels in the rat pituitary. Endocrinology. 141:2084-2089.
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MacEachern SN, Peruggia M.  2000.  Importance link function estimation for Markov Chain Monte Carlo methods. Journal of Computational and Graphical Statistics. 9:99-121.
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Gray M, McClain R, Peruggia M, Patrie J, Steers WD.  2001.  A model for predicting motor urge urinary incontinence. Nursing Research. 50:116-122.
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Elsheikh BH, Bollman E, Peruggia M, King W, Galloway G, Kissel J.  2007.  Pilot Trial of Diltiazem in Facioscapulohumeral Muscular Dystrophy. Neurology. 68:1428-1429.
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Huang Y, Hsu JC, Peruggia M, Scott A.  2006.  Statistical selection of maintenance genes for normalization of gene expressions. Statistical Applications in Genetics and Molecular Biology. 5:http://www.bepress.com/sagmb/vol5/iss1/art4.
MacEachern SN, Peruggia M.  2000.  Subsampling the random scan Gibbs sampler: variance reduction. Statistics and Probability Letters. 47:91-98.
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Zhang X, Peruggia M.  Submitted.  Targeted MCMC Algorithms for Bayesian Mixture Models. Journal of Computational and Graphical Statistics.
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Clark DL, Arnold LE, Crowl L, Bozzolo H, Peruggia M, Ramadan Y, Bornstein R, Hollway JA, Thompson S, Malone K et al..  2008.  Vestibular Stimulation for Attention-Deficit/Hyperactivity Disorder (ADHD):Randomized Controlled Trial of Comprehensive Motion Apparatus. Journal of Attention Disorders. 11:599-611.
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Peruggia M, Van Zandt T, Chen M.  2002.  Was it a car or a cat I saw? An analysis of response times for word recognition Case Studies in Bayesian Statistics. 6:319-334.
Peruggia M, Sun J, Mullins M, Suratt P.  2004.  Wavelet Modeling and Processing of Nasal Airflow Traces. Methods in Enzymology: Numerical Computer Methods, Part E. 384:106-130..