Biostatistics - Johns Hopkins Bloomberg School of Public Health

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Karen Bandeen-Roche $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Eckel SP, Bandeen-Roche K, Chaves PH, Fried LP, Louis TA: Surrogate screening models for the low physical activity criterion of frailty. Aging Clinical and Experimental Research 23(3):209-16, 2011.

Freedman VA, Kasper JD, Cornman JC, Agree EM, Bandeen-Roche K, Mor V, Spillman BC, Wallace R, Wolf DA: Validation of new measures of disability and functioning in the national health and aging trends study. Journals of Gerontology Series A 66(9):1013-21, 2011.

Nestadt G, Di C, Samuels JF, Cheng YJ, Bienvenu OJ, Reti IM, Costa P, Eaton WW, Bandeen-Roche K: Concordance between personality disorder assessment methods. Psychological Medicine Aug 24:1-11, 2011.

Di CZ, Bandeen-Roche K: Multilevel latent class models with dirichlet mixing distribution. Biometrics 67(1):86-96, 2011.

Reti IM, Xu JZ, Yanofski J, McKibben J, Uhart M, Cheng YJ, Zandi P, Bienvenu OJ, Samuels J, Willour V, Kasch-Semenza L, Costa P, Bandeen-Roche K, Eaton WW, Nestadt G: Monoamine oxidase A regulates antisocial personality in whites with no history of physical abuse. Comprehensive Psychiatry 52(2):188-94, 2011.

Lee BK, Glass TA, James BD, Bandeen-Roche K, Schwartz BS: Neighborhood psychosocial environment, apolipoprotein e genotype, and cognitive function in older adults. Archives of General Psychiatry 68(3):314-21, 2011.

Leoutsakos JM, Bandeen-Roche K, Garrett-Mayer E, Zandi PP: Incorporating scientific knowledge into phenotype development: Penalized latent class regression. Statistics in Medicine 30(7):784-98, 2011.

Lee HB, Bienvenu OJ, Cho SJ, Ramsey CM, Bandeen-Roche K, Eaton WW, Nestadt G: Personality disorders and traits as predictors of incident cardiovascular disease: findings from the 23-year follow-up of the Baltimore ECA study. Psychosomatics 51(4):289-96, 2010.

Makary MA, Segev DL, Pronovost PJ, Syin D, Bandeen-Roche K, Patel P, Takenaga R, Devgan L, Holzmueller CG, Tian J, Fried LP: Frailty as a predictor of surgical outcomes in older patients. Journal of the American College of Surgeons 210(6):901-8, 2010.

Leoutsakos JM, Zandi PP, Bandeen-Roche K, Lyketsos CG: Searching for valid psychiatric phenotypes: discrete latent variable models. International Journal of Methods in Psychiatric Research 19(2):63-73, 2010.

Sourial N, Wolfson C, Zhu B, Quail J, Fletcher J, Karunananthan S, Bandeen-Roche K, Beland F, Bergman H: Correspondence analysis is a useful tool to uncover the relationships among categorical variables. Journal of Clinical Epidemiology 63(6):638-46, 2010.

Sourial N, Wolfson C, Bergman H, Zhu B, Karunananthan S, Quail J, Fletcher J, Weiss D, Bandeen-Roche K, Beland F: A correspondence analysis revealed frailty deficits aggregate and are multidimensional. Journal of Clinical Epidemiology 63(6):647-54, 2010.

Munro CA, Jefferys J, Gower EW, Munoz BE, Lyketsos CG, Keay L, Turano KA, Bandeen-Roche K, West SK: Predictors of lane-change errors in older drivers. Journal of the American Geriatrics Society 58(3):457-64, 2010.

Weisfeldt ML, Sugarman J, Bandeen-Roche K: Toward definitive trials and improved outcomes of cardiac arrest. Circulation 121(14):1586-8, 2010.

Nestadt G, Di C, Samuels JF, Bienvenu OJ, Reti IM, Costa P, Eaton WW, Bandeen-Roche K: The stability of DSM personality disorders over twelve to eighteen years. Journal of Psychiatric Research 44(1):1-7, 2010.

Cheng Y, Fine JP, Bandeen-Roche K: Association analyses of clustered competing risks data via cross hazard ratio. Biostatistics 11(1):82-92, 2010.

West SK, Hahn DV, Baldwin KC, Duncan DD, Munoz BE, Turano KA, Hassan SE, Munro CA, Bandeen-Roche K: Older drivers and failure to stop at red lights. Journals of Gerontology Series A 65(2):179-83, 2010.

Matteini AM, Walston JD, Bandeen-Roche K, Arking DE, Allen RH, Fried LP, Chakravarti A, Stabler SP, Fallin MD: Transcobalamin-II variants, decreased vitamin B12 availability and increased risk of frailty. Journal of Nutrition, Health and Aging 14(1):73-7, 2010.

Bandeen-Roche K, Walston JD, Huang Y, Semba RD, Ferrucci L: Measuring systemic inflammatory regulation in older adults: evidence and utility. Rejuvenation Research 12(6):403-10, 2009.

Boyd CM, Ricks M, Fried LP, Guralnik JM, Xue QL, Xia J, Bandeen-Roche K: Functional decline and recovery of activities of daily living in hospitalized, disabled older women: the Women's Health and Aging Study I. Journal of the American Geriatrics Society 57(10):1757-66, 2009.

Bandeen-Roche K, Glass TA, Bolla KI, Todd AC, Schwartz BS: Cumulative lead dose and cognitive function in older adults. Epidemiology 20(6):831-9, 2009.

Nestadt G, Di CZ, Riddle MA, Grados MA, Greenberg BD, Fyer AJ, McCracken JT, Rauch SL, Murphy DL, Rasmussen SA, Cullen B, Pinto A, Knowles JA, Piacentini J, Pauls DL, Bienvenu OJ, Wang Y, Liang KY, Samuels JF, Roche KB: Obsessive-compulsive disorder: subclassification based on co-morbidity. Psychological Medicine 39(9):1491-501, 2009.

Fried LP, Xue QL, Cappola AR, Ferrucci L, Chaves P, Varadhan R, Guralnik JM, Leng SX, Semba RD, Walston JD, Blaum CS, Bandeen-Roche K: Nonlinear multisystem physiological dysregulation associated with frailty in older women: implications for etiology and treatment. Journals of Gerontology Series A 64(10):1049-57, 2009.

Brandt J, Aretouli E, Neijstrom E, Samek J, Manning K, Albert MS, Bandeen-Roche K: Selectivity of executive function deficits in mild cognitive impairment. Neuropsychology 23(5):607-18, 2009.

Keay L, Jasti S, Munoz B, Turano KA, Munro CA, Duncan DD, Baldwin K, Bandeen-Roche KJ, Gower EW, West SK: Urban and rural differences in older drivers' failure to stop at stop signs. Accident; Analysis and Prevention 41(5):995-1000, 2009.

Sherrill JT, Sommers DI, Nierenberg AA, Leon AC, Arndt S, Bandeen-Roche K, Greenhouse J, Guthrie D, Normand SL, Phillips KA, Shear MK, Woolson R: Integrating statistical and clinical research elements in intervention-related grant applications: summary from an NIMH workshop. Academic Psychiatry 33(3):221-8, 2009.

Mielke MM, Kozauer NA, Chan KC, George M, Toroney J, Zerrate M, Bandeen-Roche K, Wang MC, Vanzijl P, Pekar JJ, Mori S, Lyketsos CG, Albert M: Regionally-specific diffusion tensor imaging in mild cognitive impairment and Alzheimer's disease. NeuroImage 46(1):47-55, 2009.

Riley AW, Coiro MJ, Broitman M, Colantuoni E, Hurley KM, Bandeen-Roche K, Miranda J: Mental health of children of low-income depressed mothers: influences of parenting, family environment, and raters. Psychiatric Services 60(3):329-36, 2009.

Langbaum JB, Rebok GW, Bandeen-Roche K, Carlson MC: Predicting memory training response patterns: results from ACTIVE. Journals of Gerontology Series B 64(1):14-23, 2009.

Glass TA, Bandeen-Roche K, McAtee M, Bolla K, Todd AC, Schwartz BS: Neighborhood psychosocial hazards and the association of cumulative lead dose with cognitive function in older adults. American Journal of Epidemiology 169(6):683-92, 2009.

Szanton SL, Allen JK, Seplaki CL, Bandeen-Roche K, Fried LP: Allostatic load and frailty in the Women's Health and Aging Studies. Biological Research for Nursing 10(3):248-56, 2009.

Szanton SL, Allen JK, Thorpe RJ Jr, Seeman T, Bandeen-Roche K, Fried LP: Effect of financial strain on mortality in community-dwelling older women. Journals of Gerontology Series B 63(6):S369-74, 2008.

Varadhan R, Seplaki CL, Xue QL, Bandeen-Roche K, Fried LP: Stimulus-response paradigm for characterizing the loss of resilience in homeostatic regulation associated with frailty. Mechanisms of Ageing and Development 129(11):666-70, 2008.

Xue QL, Bandeen-Roche K, Varadhan R, Zhou J, Fried LP: Initial manifestations of frailty criteria and the development of frailty phenotype in the Women's Health and Aging Study II. Journals of Gerontology Series A 63(9):984-90, 2008.

St. Julien J, Bandeen-Roche K, Tamargo RJ: Validation of an aneurysmal subarachnoid hemorrhage grading scale in 1532 consecutive patients. Neurosurgery 63(2):204-211, 2008.

Kozachik SL, Bandeen-Roche K: Predictors of patterns of pain, fatigue, and insomnia during the first year after a cancer diagnosis in the elderly. Cancer Nursing 31(5):334-44, 2008.

Swihart BJ, Caffo B, Bandeen-Roche K, Punjabi NM: Characterizing sleep structure using the hypnogram. Journal of Clinical Sleep Medicine 4(4):349-55, 2008.

Theppeang K, Glass TA, Bandeen-Roche K, Todd AC, Rohde CA, Links JM, Schwartz BS: Associations of bone mineral density and lead levels in blood, tibia, and patella in urban-dwelling women. Environmental Health Perspectives 116(6):784-90, 2008.

Theppeang K, Glass TA, Bandeen-Roche K, Todd AC, Rohde CA, Schwartz BS: Gender and race/ethnicity differences in lead dose biomarkers. American Journal of Public Health 98(7):1248-55, 2008.

Matteini AM, Walston JD, Fallin MD, Bandeen Roche K, Kao WH, Semba RD, Allen RH, Guralnik J, Fried LP, Stabler SP: Markers of B-vitamin deficiency and frailty in older women. Journal of Nutrition, Health and Aging 12(5):303-8, 2008.

Bandeen-Roche K, Ning J: Nonparametric estimation of bivariate failure time associations in the presence of a competing risk. Biometrika 95(1):221-232, 2008.

Broman AT, Quigley HA, West SK, Katz J, Munoz B, Bandeen-Roche K, Tielsch JM, Friedman DS, Crowston J, Taylor HR, Varma R, Leske MC, Bengtsson B, Heijl A, He M, Foster PJ: Estimating the rate of progressive visual field damage in those with open-angle glaucoma, from cross-sectional data. Investigative Ophthalmology and Visual Science 49(1):66-76, 2008.

Broman AT, Congdon NG, Bandeen-Roche K, Quigley HA: Influence of corneal structure, corneal responsiveness, and other ocular parameters on tonometric measurement of intraocular pressure. Journal of Glaucoma 16(7):581-588, 2007.

Zhang L, Baldwin K, Munoz B, Munro C, Turano K, Hassan S, Lyketsos C, Bandeen-Roche K, West SK: Visual and cognitive predictors of performance on brake reaction test: Salisbury Eye Evaluation Driving Study. Ophthalmic Epidemiology 14(4):216-22, 2007.

Alley DE, Crimmins E, Bandeen-Roche K, Guralnik J, Ferrucci L: Three-year change in inflammatory markers in elderly people and mortality: the Invecchiare in Chianti Study. Journal of the American Geriatrics Society 55(11):1801-7, 2007.

Lee BK, Glass TA, McAtee MJ, Wand GS, Bandeen-Roche K, Bolla KI, Schwartz BS: Associations of salivary cortisol with cognitive function in the Baltimore memory study. Archives of General Psychiatry 64(7):810-8, 2007.

Rubin GS, Ng ES, Bandeen-Roche K, Keyl PM, Freeman EE, West SK: A prospective, population-based study of the role of visual impairment in motor vehicle crashes among older drivers: the SEE Study. Investigative Ophthalmology and Visual Science 48(4):1483-91, 2007.

Weiss CO, Fried LP, Bandeen-Roche K: Exploring the hierarchy of mobility performance in high-functioning older women. Journals of Gerontology Series A 62(2):167-73, 2007.

Rao KD, Peters DH, Bandeen-Roche K: Towards patient-centered health services in India--a scale to measure patient perceptions of quality. International Journal for Quality in Health Care 18(6):414-21, 2006.

Shih RA, Glass TA, Bandeen-Roche K, Carlson MC, Bolla KI, Todd AC, Schwartz BS: Environmental lead exposure and cognitive function in community-dwelling older adults. Neurology 67(9):1556-62, 2006.

Glenn BS, Bandeen-Roche K, Lee BK, Weaver VM, Todd AC, Schwartz BS: Changes in systolic blood pressure associated with lead in blood and bone. Epidemiology 17(5):538-44, 2006.

Asao K, Kao WH, Baptiste-Roberts K, Bandeen-Roche K, Erlinger TP, Brancati FL: Short stature and the risk of adiposity, insulin resistance, and type 2 diabetes in middle age: the third National Health and Nutrition Examination Survey (NHANES III), 1988-1994. Diabetes Care 29(7):1632-7, 2006.

Ling SM, Xue QL, Simonsick EM, Tian J, Bandeen-Roche K, Fried LP, Bathon JM: Transitions to mobility difficulty associated with lower extremity osteoarthritis in high functioning older women: Longitudinal data from the Women's Health and Aging Study II. Arthritis and Rheumatism 55(2):256-63, 2006.

Bandeen-Roche K, Xue QL, Ferrucci L, Walston J, Guralnik JM, Chaves P, Zeger SL, Fried LP: Phenotype of frailty: characterization in the Women's Health and Aging Studies. Journals of Gerontology Series A 61(3):262-6, 2006.

Congdon NG, Broman AT, Bandeen-Roche K, Grover D, Quigley HA: Central corneal thickness and corneal hysteresis associated with glaucoma damage. American Journal of Ophthalmology 141(5):868-75, 2006.

Martin D, Glass TA, Bandeen-Roche K, Todd AC, Shi W, Schwartz BS: Association of blood lead and tibia lead with blood pressure and hypertension in a community sample of older adults. American Journal of Epidemiology 163(5):467-78, 2006.

Patel I, Turano KA, Broman AT, Bandeen-Roche K, Munoz B, West SK: Measures of visual function and percentage of preferred walking speed in older adults: the Salisbury Eye Evaluation project. Investigative Ophthalmology and Visual Science 47(1):65-71, 2006.

Brian Caffo $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Louissaint NA, Nimmagadda S, Fuchs EJ, Bakshi RP, Cao YJ, Lee LA, Goldsmith J, Caffo BS, Du Y, King KE, Menendez FA, Torbenson MS, Hendrix CW: Distribution of cell-free and cell-associated HIV surrogates in the colon after simulated receptive anal intercourse in men who have sex with men. Journal of Acquired Immune Deficiency Syndromes 59(1):10-7, 2012.

Aurora RN, Caffo B, Crainiceanu C, Punjabi NM: Correlating subjective and objective sleepiness: revisiting the association using survival analysis. Sleep 34(12):1707-14, 2011.

Crainiceanu CM, Caffo BS, Luo S, Zipunnikov V, Punjabi NM: Population value decomposition, a framework for the analysis of image populations. Journal of the American Statistical Association 106(495): 775-790, 2011.

James BD, Caffo B, Stewart WF, Yousem D, Davatzikos C, Schwartz BS: Genetic risk factors for longitudinal changes in structural MRI in former organolead workers. Journal of Aging Research 2011:362189, 2011.

Lauzon CB, Asman AJ, Crainiceanu C, Caffo BC, Landman BA: Assessment of bias for MRI diffusion tensor imaging using SIMEX. Medical Image Computing and Computer-Assisted Intervention 14(Pt 2):107-15, 2011.

Nazarian S, Hansford R, Roguin A, Goldsher D, Zviman MM, Lardo AC, Caffo BS, Frick KD, Kraut MA, Kamel IR, Calkins H, Berger RD, Bluemke DA, Halperin HR: A prospective evaluation of a protocol for magnetic resonance imaging of patients with implanted cardiac devices. Annals of Internal Medicine 155(7):415-24, 2011.

Choi L, Caffo BS, Kohli U, Pandharipande P, Kurnik D, Ely EW, Stein CM: A Bayesian hierarchical nonlinear mixture model in the presence of artifactual outliers in a population pharmacokinetic study. Journal of Pharmacokinetics and Pharmacodynamics 38(5):613-36, 2011.

Zipunnikov V, Caffo B, Yousem DM, Davatzikos C, Schwartz BS, Crainiceanu C: Functional principal component model for high-dimensional brain imaging. Neuroimage 58(3):772-84, 2011.

Krauss GL, Caffo B, Chang YT, Hendrix CW, Chuang K: Assessing bioequivalence of generic antiepilepsy drugs. Annals of Neurology 70(2):221-8, 2011.

Goldsmith J, Caffo B, Crainiceanu C, Reich D, Du Y, Hendrix C: Nonlinear tube-fitting for the analysis of anatomical and functional structures. Annals of Applied Statistics 5(1):337-363, 2011.

Shinohara RT, Crainiceanu CM, Caffo BS, Gaitan MI, Reich DS: Population-wide principal component-based quantification of blood-brain-barrier dynamics in multiple sclerosis. Neuroimage 57(4):1430-46, 2011.

Goldsmith J, Crainiceanu CM, Caffo BS, Reich DS: Penalized functional regression analysis of white-matter tract profiles in multiple sclerosis. Neuroimage 57(2):431-9, 2011.

Joel SE, Caffo BS, van Zijl PC, Pekar JJ: On the relationship between seed-based and ICA-based measures of functional connectivity. Magnetic Resonance in Medicine 66(3):644-57, 2011.

Mondul AM, Caffo B, Platz EA: Minimal detection bias in the inverse association between statin drug use and advanced prostate cancer risk: a simulation study. Cancer Epidemiology 35(4):e6-11, 2011.

Nazarian S, Wagner KR, Caffo BS, Tomaselli GF: Clinical predictors of conduction disease progression in type I myotonic muscular dystrophy. Pacing & Clinical Electrophysiology 34(2):171-6, 2011.

Harrison DM, Caffo BS, Shiee N, Farrell JA, Bazin PL, Farrell SK, Ratchford JN, Calabresi PA, Reich DS: Longitudinal changes in diffusion tensor-based quantitative MRI in multiple sclerosis. Neurology 76(2):179-86, 2011.

Li X, Caffo BS: Comparison of proportions for composite endpoints with missing components. Journal of Biopharmaceutical Statistics 21(2):271-81, 2011.

Caffo B, Diener-West M, Punjabi NM, Samet J: A novel approach to prediction of mild obstructive sleep disordered breathing in a population-based sample: the Sleep Heart Health Study. Sleep 33(12):1641-8, 2010.

Laffan A, Caffo B, Swihart BJ, Punjabi NM: Utility of sleep stage transitions in assessing sleep continuity. Sleep 33(12):1681-6, 2010.

Wu H, Caffo B, Jaffee HA, Irizarry RA, Feinberg AP: Redefining CpG islands using hidden Markov models. Biostatistics 11(3):499-514, 2010.

Swihart BJ, Caffo B, James BD, Strand M, Schwartz BS, Punjabi NM: Lasagna plots: a saucy alternative to spaghetti plots. Epidemiology 21(5):621-5, 2010.

Nazarian S, Bluemke DA, Wagner KR, Zviman MM, Turkbey E, Caffo BS, Shehata M, Edwards D, Butcher B, Calkins H, Berger RD, Halperin HR, Tomaselli GF: QRS prolongation in myotonic muscular dystrophy and diffuse fibrosis on cardiac magnetic resonance. Magnetic Resonance in Medicine 64(1):107-114, 2010.

Caffo BS, Crainiceanu CM, Verduzco G, Joel S, Mostofsky SH, Bassett SS, Pekar JJ: Two-stage decompositions for the analysis of functional connectivity for fMRI with application to Alzheimer's disease risk. Neuroimage 51(3):1140-9, 2010.

Boatman-Reich D, Franaszczuk PJ, Korzeniewska A, Caffo B, Ritzl EK, Colwell S, Crone NE: Quantifying auditory event-related responses in multichannel human intracranial recordings. Frontiers in Computational Neuroscience 19;4:4, 2010.

Schwartz BS, Caffo B, Stewart WF, Hedlin H, James BD, Yousem D, Davatzikos C: Evaluation of cumulative lead dose and longitudinal changes in structural magnetic resonance imaging in former organolead workers. Journal of Occupational and Environmental Medicine 52(4):407-14, 2010.

Segev DL, Muzaale AD, Caffo BS, Mehta SH, Singer AL, Taranto SE, McBride MA, Montgomery RA: Perioperative mortality and long-term survival following live kidney donation. Journal of the American Medical Association 303(10):959-66, 2010.

Ozturk A, Smith SA, Gordon-Lipkin EM, Harrison DM, Shiee N, Pham DL, Caffo BS, Calabresi PA, Reich DS: MRI of the corpus callosum in multiple sclerosis: association with disability. Multiple Sclerosis 16(2):166-77, 2010.

Caffo B, Swihart B, Laffan A, Crainiceanu C, Punjabi N: An overview of observational sleep research with application to sleep stage transitioning. Chance 22(1):10-15, 2009.

Lauzon C, Caffo B: Easy multiplicity control in equivalence testing using two one-sided tests. The American Statistician 63(2):147-154, 2009.

Crainiceanu CM, Caffo BS, Di CZ, Punjabi NM: Nonparametric signal extraction and measurement error in the analysis of electroencephalographic activity during sleep. Journal of the American Statistical Association 104(486):541-555, 2009.

Yousem DM, Yassa MA, Cristinzio C, Kusevic I, Mohamed M, Caffo BS, Bassett SS: Intelligence and medial temporal lobe function in older adults: a functional MR imaging-based investigation. American Journal of Neuroradiology 30(8):1477-81, 2009.

Mostofsky SH, Powell SK, Simmonds DJ, Goldberg MC, Caffo B, Pekar JJ: Decreased connectivity and cerebellar activity in autism during motor task performance. Brain 132(Pt 9):2413-25, 2009.

Punjabi NM, Caffo BS, Goodwin JL, Gottlieb DJ, Newman AB, O'Connor GT, Rapoport DM, Redline S, Resnick HE, Robbins JA, Shahar E, Unruh ML, Samet JM: Sleep-disordered breathing and mortality: a prospective cohort study. PLoS Medicine 6(8):e1000132, 2009.

Reich DS, Smith SA, Gordon-Lipkin EM, Ozturk A, Caffo BS, Balcer LJ, Calabresi PA: Damage to the optic radiation in multiple sclerosis is associated with retinal injury and visual disability. Archives of Neurology 66(8):998-1006, 2009.

O'Connor GT, Caffo B, Newman AB, Quan SF, Rapoport DM, Redline S, Resnick HE, Samet J, Shahar E: Prospective study of sleep-disordered breathing and hypertension: the Sleep Heart Health Study. American Journal of Respiratory and Critical Care Medicine 179(12):1159-64, 2009.

Chen S, Wang C, Eberly LE, Caffo BS, Schwartz BS: Adaptive control of the false discovery rate in voxel-based morphometry. Human Brain Mapping 30(7):2304-11, 2009.

Caffo BS, Liu D, Scharpf RB, Parmigiani G: Likelihood estimation of conjugacy relationships in linear models with applications to high-throughput genomics. International Journal of Biostatistics 5(1):Article 18, 2009.

Di C, Crainiceanu CM, Caffo BS, Punjabi NM: Multilevel functional principal component analysis. Annals of Applied Statistics 3(1): 458-488, 2009.

Su SC, Caffo B, Garrett-Mayer E, Bassett SS: Modified test statistics by inter-voxel variance shrinkage with an application to fMRI. Biostatistics 10(2):219-27, 2009.

Caffo B, Crainiceanu CM, Deng L, Hendrix CW: A case study in pharmacologic colon imaging using principal curves in single-photon emission computed tomography. Journal of the American Statistical Association 103(484): 1470-1480, 2008.

He X, Caffo BS, Frey EC: Toward realistic and practical ideal observer (IO) estimation for the optimization of medical imaging systems. IEEE Transactions on Medical Imaging 27(10):1535-43, 2008.

Swihart BJ, Caffo B, Bandeen-Roche K, Punjabi NM: Characterizing sleep structure using the hypnogram. Journal of Clinical Sleep Medicine 4(4):349-55, 2008.

Stamatakis K, Sanders MH, Caffo B, Resnick HE, Gottlieb DJ, Mehra R, Punjabi NM: Fasting glycemia in sleep disordered breathing: lowering the threshold on oxyhemoglobin desaturation. Sleep 31(7):1018-24, 2008.

Redgrave GW, Bakker A, Bello NT, Caffo BS, Coughlin JW, Guarda AS, McEntee JE, Pekar JJ, Reinblatt SP, Verduzco G, Moran TH: Differential brain activation in anorexia nervosa to Fat and Thin words during a Stroop task. Neuroreport 19(12):1181-1185, 2008.

Choi L, Caffo B, Rohde C: A survey of the likelihood approach to bioequivalence trials. Statistics in Medicine 27(24):4874-4894, 2008.

Cao YJ, Ndovi TT, Parsons TL, Guidos AM, Caffo B, Hendrix CW: Effect of semen sampling frequency on seminal antiretroviral drug concentration. Clinical Pharmacology and Therapeutics 83(6):848-56, 2008.

Scharfstein DO, Ryea JL, Caffo B: Accounting for within-patient correlation in assessing relative sensitivity of an adjunctive diagnostic test: application to lung cancer. Statistics in Medicine 27(12):2110-26, 2008.

Guilarte TR, Hammoud DA, McGlothan JL, Caffo BS, Foss CA, Kozikowski AP, Pomper MG: Dysregulation of glutamate carboxypeptidase II in psychiatric disease. Schizophrenia Research 99(1-3):324-32, 2008.

Cao YJ, Caffo B, Choi L, Radebaugh CL, Fuchs EJ, Hendrix CW: Noninvasive quantitation of drug concentration in prostate and seminal vesicles: improvement and validation with desipramine and aspirin. Journal of Clinical Pharmacology 48(2):176-83, 2008.

Caffo B, Chen S, Stewart W, Bolla K, Yousem D, Davatzikos C, Schwartz BS: Are brain volumes based on magnetic resonance imaging mediators of the associations of cumulative lead dose with cognitive function? American Journal of Epidemiology 167(4):429-37, 2008.

Zhang L, Samet J, Caffo B, Bankman I, Punjabi NM: Power spectral analysis of EEG activity during sleep in cigarette smokers. Chest 133(2):427-32, 2008.

Bowman FD, Caffo B, Bassett SS, Kilts C: A Bayesian hierarchical framework for spatial modeling of fMRI data. Neuroimage 39(1):146-56, 2008.

Choi L, Caffo B, Rohde C, Ndovi TT, Hendrix CW: A mechanistic latent variable model for estimating drug concentrations in the male genital tract: A case study in drug kinetics. Statistics in Medicine 27(14):2697-2714, 2007.

Choi L, Caffo B, Rohde C: Optimal sampling times in bioequivalence studies using a simulated annealing algorithm. Statistics and Computing 17(4):337-347, 2007.

Schwartz BS, Chen S, Caffo B, Stewart WF, Bolla KI, Yousem D, Davatzikos C: Relations of brain volumes with cognitive function in males 45 years and older with past lead exposure. Neuroimage 37(2):633-41, 2007.

Li X, Caffo B, Scharfstein D: On the potential for illogic with logically defined outcomes. Biostatistics 8(4):800-4, 2007.

Caffo B, An MW, Rohde C: Flexible random intercept models for binary outcomes using mixtures of normals. Computational Statistics & Data Analysis 51(11):5220-5235, 2007.

Ndovi TT, Parsons T, Choi L, Caffo B, Rohde C, Hendrix CW: A new method to estimate quantitatively seminal vesicle and prostate gland contributions to ejaculate. British Journal of Clinical Pharmacology 63(4):404-420, 2007.

Caffo B: Exact hypothesis tests for log-linear models with exactLoglinTest. Journal of Statistical Software 17(7), 2006.

Jones GL, Haran M, Caffo BS, Neath R: Fixed-width output analysis for Markov chain Monte Carlo. Journal of the American Statistical Association 101(476):1537-1547, 2006.

Ndovi TT, Choi L, Caffo B, Parsons T, Baker S, Zhao M, Rohde C, Hendrix CW: Quantitative assessment of seminal vesicle and prostate drug concentrations by use of a noninvasive method. Clinical Pharmacology and Therapeutics 80(2):146-58, 2006.

Zhang L, Samet J, Caffo B, Punjabi NM: Cigarette smoking and nocturnal sleep architecture. American Journal of Epidemiology 164(6):529-37, 2006.

Bassett SS, Yousem DM, Cristinzio C, Kusevic I, Yassa MA, Caffo BS, Zeger SL: Familial risk for Alzheimer's disease alters fMRI activation patterns. Brain 129(Pt 5):1229-1239, 2006.

Caffo B, Griswold M: A user-friendly introduction to link-probit-normal models. The American Statistician 60(2):139-145, 2006.

Elizabeth Colantuoni (Johnson) $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Colantuoni C, Lipska BK, Ye T, Hyde TM, Tao R, Leek JT, Colantuoni EA, Elkahloun AG, Herman MM, Weinberger DR, Kleinman JE: Temporal dynamics and genetic control of transcription in the human prefrontal cortex. Nature 478(7370):519-23, 2011.

Hatef E, Colantuoni E, Wang J, Ibrahim M, Shulman M, Adhi F, Sepah YJ, Channa R, Khwaja A, Nguyen QD, Do DV: The relationship between macular sensitivity and retinal thickness in eyes with diabetic macular edema. American Journal of Ophthalmology 152(3):400-405.e2, 2011.

Damluji A, Colantuoni E, Mendez-Tellez PA, Sevransky JE, Fan E, Shanholtz C, Wojnar M, Pronovost PJ, Needham DM: Short-term mortality prediction for acute lung injury patients: external validation of the Acute Respiratory Distress Syndrome Network prediction model. Critical Care Medicine 39(5):1023-8, 2011.

Waters HR, Korn R Jr, Colantuoni E, Berenholtz SM, Goeschel CA, Needham DM, Pham JC, Lipitz-Snyderman A, Watson SR, Posa P, Pronovost PJ: The business case for quality: economic analysis of the Michigan Keystone Patient Safety Program in ICUs. American Journal of Medical Quality 26(5):333-9, 2011.

Lipitz-Snyderman A, Needham DM, Colantuoni E, Goeschel CA, Marsteller JA, Thompson DA, Berenholtz SM, Lubomski LH, Watson S, Pronovost PJ: The ability of intensive care units to maintain zero central line-associated bloodstream infections. Archives of Internal Medicine 171(9):856-8, 2011.

Berenholtz SM, Pham JC, Thompson DA, Needham DM, Lubomski LH, Hyzy RC, Welsh R, Cosgrove SE, Sexton JB, Colantuoni E, Watson SR, Goeschel CA, Pronovost PJ: Collaborative cohort study of an intervention to reduce ventilator-associated pneumonia in the intensive care unit. Infection Control & Hospital Epidemiology 32(4):305-14, 2011.

Aslakson RA, Romig M, Galvagno SM, Colantuoni E, Cosgrove SE, Perl TM, Pronovost PJ: Effect of accounting for multiple concurrent catheters on central line-associated bloodstream infection rates: practical data supporting a theoretical concern. Infection Control & Hospital Epidemiology 32(4):121-4, 2011.

Martinez EA, Shore A, Colantuoni E, Herzer K, Thompson DA, Gurses AP, Marsteller JA, Bauer L, Goeschel CA, Cleary K, Pronovost PJ, Pham JC: Cardiac surgery errors: results from the UK National Reporting and Learning System. International Journal for Quality in Health Care 23(2):151-8, 2011.

Pham JC, Colantuoni E, Dominici F, Shore A, Macrae C, Scobie S, Fletcher M, Cleary K, Goeschel CA, Pronovost PJ: The harm susceptibility model: a method to prioritise risks identified in patient safety reporting systems. Quality & Safety in Health Care 19(5):440-5, 2010.

Colantuoni E, Surplus G, Hackman A, Arrighi HM, Brookmeyer R: Web-based application to project the burden of Alzheimer's disease. Alzheimer's & Dementia 6(5):425-8, 2010.

Sawyer M, Weeks K, Goeschel CA, Thompson DA, Berenholtz SM, Marsteller JA, Lubomski LH, Cosgrove SE, Winters BD, Murphy DJ, Bauer LC, Duval-Arnould J, Pham JC, Colantuoni E, Pronovost PJ: Using evidence, rigorous measurement, and collaboration to eliminate central catheter-associated bloodstream infections. Critical Care Medicine 38(8 Suppl):S292-8, 2010.

Mendez-Tellez PA, Damluji A, Ammerman D, Colantuoni E, Fan E, Sevransky JE, Shanholtz C, Gallant JE, Pronovost PJ, Needham DM: Human immunodeficiency virus infection and hospital mortality in acute lung injury patients. Critical Care Medicine 38(7):1530-5, 2010.

Needham DM, Korupolu R, Zanni JM, Pradhan P, Colantuoni E, Palmer JB, Brower RG, Fan E: Early physical medicine and rehabilitation for patients with acute respiratory failure: a quality improvement project. Archives of Physical Medicine and Rehabilitation 91(4):536-42, 2010.

Pronovost PJ, Goeschel CA, Colantuoni E, Watson S, Lubomski LH, Berenholtz SM, Thompson DA, Sinopoli DJ, Cosgrove S, Sexton JB, Marsteller JA, Hyzy RC, Welsh R, Posa P, Schumacher K, Needham D: Sustaining reductions in catheter related bloodstream infections in Michigan intensive care units: observational study. BMJ 340:c309, 2010.

Rinke ML, Bundy DG, Shore AD, Colantuoni E, Morlock LL, Miller MR: Pediatric antidepressant medication errors in a national error reporting database. Journal of Developmental and Behavioral Pediatrics 31(2):129-36, 2010.

Gifford JM, Husain N, Dinglas VD, Colantuoni E, Needham DM: Baseline quality of life before intensive care: a comparison of patient versus proxy responses. Critical Care Medicine 38(3):855-60, 2010.

Hodgkinson SC, Colantuoni E, Roberts D, Berg-Cross L, Belcher HM: Depressive symptoms and birth outcomes among pregnant teenagers. Journal of Pediatric and Adolescent Gynecology 23(1):16-22, 2010.

Berkow LC, Greenberg RS, Kan KH, Colantuoni E, Mark LJ, Flint PW, Corridore M, Bhatti N, Heitmiller ES: Need for emergency surgical airway reduced by a comprehensive difficult airway program. Anesthesia and Analgesia 109(6):1860-9, 2009.

Boin F, Franchini S, Colantuoni E, Rosen A, Wigley FM, Casciola-Rosen L: Independent association of anti-beta(2)-glycoprotein I antibodies with macrovascular disease and mortality in scleroderma patients. Arthritis and Rheumatism 60(8):2480-89, 2009.

Easley RB, Mulreany DG, Lancaster CT, Custer JW, Fernandez-Bustamante A, Colantuoni E, Simon BA: Redistribution of pulmonary blood flow impacts thermodilution-based extravascular lung water measurements in a model of acute lung injury. Anesthesiology 111(5):1065-74, 2009.

Joffe A, McNeely C, Colantuoni E, An MW, Wang W, Scharfstein D: Evaluation of school-based smoking-cessation interventions for self-described adolescent smokers. Pediatrics 124(2):e187-94, 2009.

Haut ER, Chang DC, Pierce CA, Colantuoni E, Efron DT, Haider AH, Cornwell EE 3rd, Pronovost PJ: Predictors of posttraumatic deep vein thrombosis (DVT): hospital practice versus patient factors-an analysis of the National Trauma Data Bank (NTDB). Journal of Trauma 66(4):994-9, 2009.

Newhouse RP, Morlock L, Pronovost P, Colantuoni E, Johantgen M: Rural hospital nursing: Better environments = shared vision and quality/safety engagement. Journal of Nursing Administration 39(4):189-95, 2009.

Pronovost PJ, Colantuoni E: Measuring preventable harm: helping science keep pace with policy. Journal of the American Medical Association 301(12):1273-5, 2009.

Magill SS, Swoboda SM, Shields CE, Colantuoni EA, Fothergill AW, Merz WG, Lipsett PA, Hendrix CW: The epidemiology of Candida colonization and invasive candidiasis in a surgical intensive care unit where fluconazole prophylaxis is utilized: follow-up to a randomized clinical trial. Annals of Surgery 249(4):657-65, 2009.

Riley AW, Coiro MJ, Broitman M, Colantuoni E, Hurley KM, Bandeen-Roche K, Miranda J: Mental health of children of low-income depressed mothers: influences of parenting, family environment, and raters. Psychiatric Services 60(3):329-36, 2009.

Ramirez DW, Schuette JJ, Knight V, Johnson E, Denise J, Walker AR: Necessity of routine pelvic radiograph in the pediatric blunt trauma patient. Clinical Pediatrics 47(9):935-40, 2008.

Ziegler-Graham K, Brookmeyer R, Johnson E, Arrighi HM: Worldwide variation in the doubling time of Alzheimer's disease incidence rates. Alzheimer's & Dementia 4(5):316-23, 2008.

Lutwama F, Serwadda R, Mayanja-Kizza H, Shihab HM, Ronald A, Kamya MR, Thomas D, Johnson E, Quinn TC, Moore RD, Spacek LA: Evaluation of dynabeads and cytospheres compared with flow cytometry to enumerate CD4+ T cells in HIV-infected Ugandans on antiretroviral therapy. Journal of Acquired Immune Deficiency Syndromes 48(3):297-303, 2008.

Colantuoni C, Hyde TM, Mitkus S, Joseph A, Sartorius L, Aguirre C, Creswell J, Johnson E, Deep-Soboslay A, Herman MM, Lipska BK, Weinberger DR, Kleinman JE: Age-related changes in the expression of schizophrenia susceptibility genes in the human prefrontal cortex. Brain Structure and Function 213(1-2):255-71, 2008.

Carvalho R, Johnson E, Kozlosky M, Scheimann AO: Clinical profile of the overweight child in the new millennium. Clinical Pediatrics 47(5):476-82, 2008.

Chong RY, Uhart M, McCaul ME, Johnson E, Wand GS: Whites have a more robust hypothalamic-pituitary-adrenal axis response to a psychological stressor than blacks. Psychoneuroendocrinology 33(2):246-54, 2008.

Dosreis S, Johnson E, Steinwachs D, Rohde C, Skinner EA, Fahey M, Lehman AF: Antipsychotic treatment patterns and hospitalizations among adults with schizophrenia. Schizophrenia Research 101(1-3):304-11, 2008.

Johnson E, Brookmeyer R, Ziegler-Graham K: Modeling the effect of Alzheimer's disease on mortality. International Journal of Biostatistics 3(1):Article 13, 2007.

Belcher HME, Watkins K, Johnson E, Ialongo N: Early Head Start: Factors associated with caregiver knowledge of child development, parenting behavior, and parenting stress. NHSA Dialog 10(1):6-19, 2007.

Wand GS, Oswald LM, McCaul ME, Wong DF, Johnson E, Zhou Y, Kuwabara H, Kumar A: Association of amphetamine-induced striatal dopamine release and cortisol responses to psychological stress. Neuropsychopharmacology 32(11):2310-20, 2007.

Aina-Mumuney AJ, Althaus JE, Henderson JL, Blakemore MC, Johnson EA, Graham EM: Intrapartum electronic fetal monitoring and the identification of systemic fetal inflammation. Journal of Reproductive Medicine 52(9):762-8, 2007.

Dickler HB, Fang D, Heinig SJ, Johnson E, Korn D: New physician-investigators receiving National Institutes of Health research project grants: a historical perspective on the "endangered species". Journal of the American Medical Association 297(22):2496-501, 2007.

Brookmeyer R, Johnson E, Ziegler-Graham K, Arrighi HM: Forecasting the global burden of Alzheimer's disease. Alzheimer's & Dementia 3(3):186-191, 2007.

Magill SS, Swoboda SM, Johnson EA, Merz WG, Pelz RK, Lipsett PA, Hendrix CW: The association between anatomic site of Candida colonization, invasive candidiasis, and mortality in critically ill surgical patients. Diagnostic Microbiology and Infectious Disease 55(4):293-301, 2006.

Silva AM, Smith RN, Lehmann CU, Johnson EA, Holcroft CJ, Graham EM: Neonatal nucleated red blood cells and the prediction of cerebral white matter injury in preterm infants. Obstetrics and Gynecology 107(3):550-556, 2006.

Gurewitsch ED, Johnson E, Hamzehzadeh S, Allen RH: Risk factors for brachial plexus injury with and without shoulder dystocia. American Journal of Obstetrics and Gynecology 194(2):486-92, 2006.

Ciprian Crainiceanu $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Aurora RN, Caffo B, Crainiceanu C, Punjabi NM: Correlating subjective and objective sleepiness: revisiting the association using survival analysis. Sleep 34(12):1707-14, 2011.

Crainiceanu CM, Caffo BS, Luo S, Zipunnikov V, Punjabi NM: Population value decomposition, a framework for the analysis of image populations. Journal of the American Statistical Association 106(495): 775-790, 2011.

Korzeniewska A, Franaszczuk PJ, Crainiceanu CM, Kus R, Crone NE: Dynamics of large-scale cortical interactions at high gamma frequencies during word production: event related causality (ERC) analysis of human electrocorticography (ECoG). Neuroimage 56(4):2218-37, 2011.

Lauzon CB, Asman AJ, Crainiceanu C, Caffo BC, Landman BA: Assessment of bias for MRI diffusion tensor imaging using SIMEX. Medical Image Computing and Computer-Assisted Intervention 14(Pt 2):107-15, 2011.

Goldsmith, Wand MP, Crainiceanu C: Functional regression via variational Bayes. Electronic J Statistics 5: 572–602, 2011.

Zipunnikov V, Caffo B, Yousem DM, Davatzikos C, Schwartz BS, Crainiceanu C: Functional principal component model for high-dimensional brain imaging. Neuroimage 58(3):772-84, 2011.

Shinohara RT, Crainiceanu CM, Caffo BS, Gaitan MI, Reich DS: Population-wide principal component-based quantification of blood-brain-barrier dynamics in multiple sclerosis. Neuroimage 57(4):1430-46, 2011.

Goldsmith J, Crainiceanu CM, Caffo BS, Reich DS: Penalized functional regression analysis of white-matter tract profiles in multiple sclerosis. Neuroimage 57(2):431-9, 2011.

Warner CV, Syc SB, Stankiewicz AM, Hiremath G, Farrell SK, Crainiceanu CM, Conger A, Frohman TC, Bisker ER, Balcer LJ, Frohman EM, Calabresi PA, Saidha S: The impact of utilizing different optical coherence tomography devices for clinical purposes and in multiple sclerosis trials. PLoS One 6(8):e22947, 2011.

Goldsmith J, Caffo B, Crainiceanu C, Reich D, Du Y, Hendrix C: Nonlinear tube-fitting for the analysis of anatomical and functional structures. Annals of Applied Statistics 5(1):337-363, 2011.

Tellez-Plaza M, Navas-Acien A, Crainiceanu CM, Sharrett AR, Guallar E: Cadmium and peripheral arterial disease: gender differences in the 1999-2004 US National Health and Nutrition Examination Survey. American Journal of Epidemiology 172(6):671-81, 2010.

Caffo BS, Crainiceanu CM, Verduzco G, Joel S, Mostofsky SH, Bassett SS, Pekar JJ: Two-stage decompositions for the analysis of functional connectivity for fMRI with application to Alzheimer's disease risk. Neuroimage 51(3):1140-9, 2010.

Staicu AM, Crainiceanu CM, Carroll RJ: Fast methods for spatially correlated multilevel functional data. Biostatistics 11(2):177-94, 2010.

Crainiceanu CM, Staicu AM, Di CZ: Generalized multilevel functional regression. Journal of the American Statistical Association 104(488):1550-1561, 2009.

Gardner RM, Nyland JF, Evans SL, Wang SB, Doyle KM, Crainiceanu CM, Silbergeld EK: Mercury induces an unopposed inflammatory response in human peripheral blood mononuclear cells in vitro. Environmental Health Perspectives 117(12):1932-8, 2009.

Caffo B, Swihart B, Laffan A, Crainiceanu C, Punjabi N: An overview of observational sleep research with application to sleep stage transitioning. Chance 22(1):10-15, 2009.

Crainiceanu CM, Caffo BS, Di CZ, Punjabi NM: Nonparametric signal extraction and measurement error in the analysis of electroencephalographic activity during sleep. Journal of the American Statistical Association 104(486):541-555, 2009.

Luo S, Crainiceanu CM, Louis TA, Chatterjee N: Bayesian inference for smoking cessation with a latent cure state. Biometrics 65(3):970-8, 2009.

Cheng YJ, Crainiceanu CM: Cox models with smooth functional effect of covariates measured with error. Journal of the American Statistical Association 104(487):1144-1154, 2009.

Navas-Acien A, Umans JG, Howard BV, Goessler W, Francesconi KA, Crainiceanu CM, Silbergeld EK, Guallar E: Urine arsenic concentrations and species excretion patterns in American Indian communities over a 10-year period: the Strong Heart Study. Environmental Health Perspectives 117(9):1428-33, 2009.

Di C, Crainiceanu CM, Caffo BS, Punjabi NM: Multilevel functional principal component analysis. Annals of Applied Statistics 3(1): 458-488, 2009.

Caffo B, Crainiceanu CM, Deng L, Hendrix CW: A case study in pharmacologic colon imaging using principal curves in single-photon emission computed tomography. Journal of the American Statistical Association 103(484): 1470-1480, 2008.

Greven S, Crainiceanu CM, Kuchenhoff H, Peters A: Restricted likelihood ratio testing for zero variance components in linear mixed models. Journal of Computational and Graphical Statistics 17(4): 870-891, 2008.

Luo S, Crainiceanu CM, Louis TA, Chatterjee N: Analysis of smoking cessation patterns using a stochastic mixed-effects model With a latent cured state. Journal of the American Statistical Association 103(483):1002-1013, 2008.

Crainiceanu CM, Dominici F: Adjustment uncertainty in effect estimation. Biometrika 95(3):635-651, 2008.

Dominici F, Wang C, Crainiceanu C, Parmigiani G: Model selection and health effect estimation in environmental epidemiology. Epidemiology 19(4):558-60, 2008.

Krivobokova T, Crainiceanu CM, Kauermann G: Fast adaptive penalized splines. Journal of Computational and Graphical Statistics 17(1):1-20, 2008.

Crainiceanu CM, Diggle PJ, Rowlingson B: Bivariate binomial spatial modeling of Loa loa prevalence in tropical Africa (with discussion). Journal of the American Statistical Association 103(481):21-37, 2008.

Tellez-Plaza M, Navas-Acien A, Crainiceanu CM, Guallar E: Cadmium exposure and hypertension in the 1999-2004 National Health and Nutrition Examination Survey (NHANES). Environmental Health Perspectives 116(1):51-6, 2008.

Korzeniewska A, Crainiceanu CM, Kus R, Franaszczuk PJ, Crone NE: Dynamics of event-related causality in brain electrical activity. Human Brain Mapping 29(10):1170-1192, 2007.

Crainiceanu CM, Ruppert D, Carroll RJ, Joshi A, Goodner B: Spatially adaptive Bayesian penalized splines with heteroscedastic errors. Journal of Computational and Graphical Statistics 16(2):265-288, 2007.

Selvin E, Crainiceanu CM, Brancati FL, Coresh J: Short-term variability in measures of glycemia and implications for the classification of diabetes. Archives of Internal Medicine 167(14):1545-51, 2007.

Kottgen A, Russell SD, Loehr LR, Crainiceanu CM, Rosamond WD, Chang PP, Chambless LE, Coresh J: Reduced kidney function as a risk factor for incident heart failure: the Atherosclerosis Risk in Communities (ARIC) Study. Journal of the American Society of Nephrology 18(4):1307-15, 2007.

Crainiceanu CM, Vogelsang TJ: Nonmonotonic power for tests of a mean shift in a time series. Journal of Statistical Computation and Simulation 77(6):457-476, 2007.

Gimenez O, Crainiceanu C, Barbraud C, Jenouvrier S, Morgan BJ: Semiparametric regression in capture-recapture modeling. Biometrics 62(3):691-8, 2006.

Frank Curriero $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Choi M, Curriero FC, Johantgen M, Mills ME, Sattler B, Lipscomb J: Association between ozone and emergency department visits: an ecological study. International Journal of Environmental Health Research 21(3):201-21, 2011.

Rossen LM, Pollack KM, Curriero FC, Shields TM, Smart MJ, Furr-Holden C DM, Cooley-Strickland M: Neighborhood incivilities, perceived neighborhood safety, and walking to school among urban-dwelling children. Journal of Physical Activity & Health 8(2):262-71, 2011.

DeLisle S, South B, Anthony JA, Kalp E, Gundlapallli A, Curriero FC, Glass GE, Samore M, Perl TM: Combining free text and structured electronic medical record entries to detect acute respiratory infections. PLoS One 5(10):e13377, 2010.

Feng J, Glass TA, Curriero FC, Stewart WF, Schwartz BS: The built environment and obesity: a systematic review of the epidemiologic evidence. Health and Place 16(2):175-90, 2010.

Fox M, Curriero F, Kulbicki K, Resnick B, Burke T: Evaluating the community health legacy of WWI chemical weapons testing. Journal of Community Health 35(1):93-103, 2010.

Curriero FC, Kulldorff M, Boscoe FP, Klassen AC: Using imputation to provide location information for nongeocoded addresses. PLoS One 5(2):e8998, 2010.

Torio CM, Klassen AC, Curriero FC, Caballero B, Helzlsouer K: The modifying effect of social class on the relationship between body mass index and breast cancer incidence. American Journal of Public Health 100(1):146-51, 2010.

Uscher-Pines L, Vernick JS, Curriero F, Lieberman R, Burke TA: Disaster-related injuries in the period of recovery: the effect of prolonged displacement on risk of injury in older adults. Journal of Trauma 67(4):834-40, 2009.

Lowther SA, Curriero FC, Kalish BT, Shields TM, Monze M, Moss WJ: Population immunity to measles virus and the effect of HIV-1 infection after a mass measles vaccination campaign in Lusaka, Zambia: a cross-sectional survey. Lancet 373(9668):1025-32, 2009.

Lowther SA, Curriero FC, Shields T, Ahmed S, Monze M, Moss WJ: Feasibility of satellite image-based sampling for a health survey among urban townships of Lusaka, Zambia. Tropical Medicine and International Health 14(1):70-8, 2009.

Neff RA, Curriero FC, Burke TA: Just in the wrong place...?: Geographic tools for occupational injury/illness surveillance. American Journal of Industrial Medicine 51(9):680-690, 2008.

Sapkota AR, Curriero FC, Gibson KE, Schwab KJ: Antibiotic-resistant enterococci and fecal indicators in surface water and groundwater impacted by a concentrated swine feeding operation. Environmental Health Perspectives 115(7):1040-5, 2007.

Schwab KJ, Gibson KE, Williams DL, Kulbicki KM, Lo CP, Mihalic JN, Breysse PN, Curriero FC, Geyh AS: Microbial and chemical assessment of regions within New Orleans, LA impacted by Hurricane Katrina. Environmental Science & Technology 41(7):2401-6, 2007.

Graczyk TK, Lewis EJ, Glass G, Dasilva AJ, Tamang L, Girouard AS, Curriero FC: Quantitative assessment of viable Cryptosporidium parvum load in commercial oysters (Crassostrea virginica) in the Chesapeake Bay. Parasitology Research 100(2):247-53, 2007.

Curriero FC: On the use of non-Euclidean distance measures in geostatistics. Mathematical Geology 38(8):907-926, 2006.

Shone SM, Curriero FC, Lesser CR, Glass GE: Characterizing population dynamics of Aedes sollicitans (Diptera: Culicidae) using meteorological data. Journal of Medical Entomology 43(2):393-402, 2006.

Klassen AC, Curriero F, Kulldorff M, Alberg AJ, Platz EA, Neloms ST: Missing stage and grade in Maryland prostate cancer surveillance data, 1992-1997. American Journal of Preventive Medicine 30(2 Suppl):S77-87, 2006.

Marie Diener-West $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Borsting E, Mitchell GL, Kulp MT, Scheiman M, Amster DM, Cotter S, Coulter RA, Fecho G, Gallaway MF, Granet D, Hertle R, Rodena J, Yamada T, CITT Study Group (includes Diener-West M): Improvement in academic behaviors after successful treatment of convergence insufficiency. Optometry and Vision Science 89(1):12-8, 2012.

Bittner AK, Diener-West M, Dagnelie G: Characteristics and possible visual consequences of photopsias as vision measures are reduced in retinitis pigmentosa. Investigative Ophthalmology and Visual Science 52(9):6370-6, 2011.

Pediatric Eye Disease Investigator Group (PEDIG) Writing Committee (includes Diener-West M), Wallace DK, Kraker RT, Beck RW, Cotter SA, Davis PL, Holmes JM, Repka MX, Suh DW: Randomized trial to evaluate combined patching and atropine for residual amblyopia. Archives of Ophthalmology 129(7):960-2, 2011.

Correction of Myopia Evaluation Trial 2 Study Group for the Pediatric Eye Disease Investigator Group (includes Diener-West M): Progressive-addition lenses versus single-vision lenses for slowing progression of myopia in children with high accommodative lag and near esophoria. Investigative Ophthalmology and Visual Science 52(5):2749-57, 2011.

Dixon BS, Beck GJ, Dember LM, Vazquez MA, Greenberg A, Delmez JA, Allon M, Himmelfarb J, Hu B, Greene T, Radeva MK, Davidson IJ, Ikizler TA, Braden GL, Lawson JH, Cotton JR Jr, Kusek JW, Feldman HI, Dialysis Access Consortium (DAC) Study Group (includes Diener-West M): Use of aspirin associates with longer primary patency of hemodialysis grafts. Journal of the American Society of Nephrology 22(4):773-81, 2011.

Chen AE, Carroll KC, Diener-West M, Ross T, Ordun J, Goldstein MA, Kulkarni G, Cantey JB, Siberry GK: Randomized controlled trial of cephalexin versus clindamycin for uncomplicated pediatric skin infections. Pediatrics 127(3):e573-80, 2011.

Ybarra ML, Mitchell KJ, Hamburger M, Diener-West M, Leaf PJ: X-rated material and perpetration of sexually aggressive behavior among children and adolescents: is there a link? Aggressive Behavior 37(1):1-18, 2011.

Bembea MM, Nadkarni VM, Diener-West M, Venugopal V, Carey SM, Berg RA, Hunt EA, American Heart Association National Registry of Cardiopulmonary Resuscitation Investigators: Temperature patterns in the early postresuscitation period after pediatric inhospital cardiac arrest. Pediatric Critical Care Medicine 11(6):723-30, 2010.

Caffo B, Diener-West M, Punjabi NM, Samet J: A novel approach to prediction of mild obstructive sleep disordered breathing in a population-based sample: the Sleep Heart Health Study. Sleep 33(12):1641-8, 2010.

Scheiman M, Kulp MT, Cotter S, Mitchell GL, Gallaway M, Boas M, Coulter R, Hopkins K, Tamkins S, Convergence Insufficiency Treatment Trial Study Group (includes Diener-West M): Vision therapy/orthoptics for symptomatic convergence insufficiency in children: treatment kinetics. Optometry and Vision Science 87(8):593-603, 2010.

Sangweme DT, Midzi N, Zinyowera-Mutapuri S, Mduluza T, Diener-West M, Kumar N: Impact of schistosome infection on plasmodium falciparum malariometric indices and immune correlates in school age children in Burma Valley, Zimbabwe. PLoS Neglected Tropical Diseases 4(11):e882, 2010.

Dodson JL, Furth SL, Yenokyan G, Alcorn K, Diener-West M, Wu AW, Gearhart JP: Parent perspectives of health related quality of life for adolescents with bladder exstrophy-epispadias as measured by the child health questionnaire-parent form 50. Journal of Urology 184(4 Suppl):1656-61, 2010.

Repka MX, Kraker RT, Beck RW, Atkinson CS, Bacal DA, Bremer DL, Davis PL, Gearinger MD, Glaser SR, Hoover DL, Laby DM, Morrison DG, Rogers DL, Sala NA, Suh DW, Wheeler MB, Pediatric Eye Disease Investigator Group (includes Diener-West M): Pilot study of levodopa dose as treatment for residual amblyopia in children aged 8 years to younger than 18 years. Archives of Ophthalmology 128(9):1215-7, 2010.

Gottlieb DJ, Yenokyan G, Newman AB, O'Connor GT, Punjabi NM, Quan SF, Redline S, Resnick HE, Tong EK, Diener-West M, Shahar E: Prospective study of obstructive sleep apnea and incident coronary heart disease and heart failure: the sleep heart health study. Circulation 122(4):352-60, 2010.

Redline S, Yenokyan G, Gottlieb DJ, Shahar E, O'Connor GT, Resnick HE, Diener-West M, Sanders MH, Wolf PA, Geraghty EM, Ali T, Lebowitz M, Punjabi NM: Obstructive sleep apnea-hypopnea and incident stroke: the sleep heart health study. American Journal of Respiratory and Critical Care Medicine 182(2):269-77, 2010.

Sengupta A, Lehmann C, Diener-West M, Perl TM, Milstone AM: Catheter duration and risk of CLA-BSI in neonates with PICCs. Pediatrics 125(4):648-53, 2010.

Convergence Insufficiency Treatment Trial Study Group (includes Diener-West M): Long-term effectiveness of treatments for symptomatic convergence insufficiency in children. Optometry and Vision Science 86(9):1096-103, 2009.

Bittner AK, Diener-West M, Dagnelie G: A survey of photopsias in self-reported retinitis pigmentosa: location of photopsias is related to disease severity. Retina 29(10):1513-21, 2009.

Ybarra ML, Langhinrichsen-Rohling J, Friend J, Diener-West M: Impact of asking sensitive questions about violence to children and adolescents. Journal of Adolescent Health 45(5):499-507, 2009.

Merlo CA, Weiss ES, Orens JB, Borja MC, Diener-West M, Conte JV, Shah AS: Impact of U.S. Lung Allocation Score on survival after lung transplantation. Journal of Heart and Lung Transplantation 28(8):769-75, 2009.

Dixon BS, Beck GJ, Vazquez MA, Greenberg A, Delmez JA, Allon M, Dember LM, Himmelfarb J, Gassman JJ, Greene T, Radeva MK, Davidson IJ, Ikizler TA, Braden GL, Fenves AZ, Kaufman JS, Cotton JR Jr, Martin KJ, McNeil JW, Rahman A, Lawson JH, Whiting JF, Hu B, Meyers CM, Kusek JW, Feldman HI, DAC Study Group (includes Diener-West M): Effect of dipyridamole plus aspirin on hemodialysis graft patency. New England Journal of Medicine 360(21):2191-201, 2009.

Repka MX, Chandler DL, Holmes JM, Hoover DL, Morse CL, Schloff S, Silbert DI, Tien DR, Pediatric Eye Disease Investigator Group (includes Diener-West M): Balloon catheter dilation and nasolacrimal duct intubation for treatment of nasolacrimal duct obstruction after failed probing. Archives of Ophthalmology 127(5):633-9, 2009.

Hunt EA, Vera K, Diener-West M, Haggerty JA, Nelson KL, Shaffner DH, Pronovost PJ: Delays and errors in cardiopulmonary resuscitation and defibrillation by pediatric residents during simulated cardiopulmonary arrests. Resuscitation 80(7):819-25, 2009.

Rouse M, Borsting E, Mitchell GL, Cotter SA, Kulp M, Scheiman M, Barnhardt C, Bade A, Yamada T, Convergence Insufficiency Treatment Trial (CITT) Investigator Group (includes Diener-West M): Validity of the convergence insufficiency symptom survey: a confirmatory study. Optometry and Vision Science 86(4):357-63, 2009.

Amarasingham R, Plantinga L, Diener-West M, Gaskin DJ, Powe NR: Clinical information technologies and inpatient outcomes: a multiple hospital study. Archives of Internal Medicine 169(2):108-14, 2009.

Pediatric Eye Disease Investigator Group (includes Diener-West M): Interobserver reliability of the prism and alternate cover test in children with esotropia. Archives of Ophthalmology 127(1):59-65, 2009.

Singh AD, Schachat AP, Diener-West M, Reynolds SM: Small choroidal melanoma. Ophthalmology 115(12):2319-2319, 2008.

Lee JM, Kleinbaum D, Diener-West M, Grimley DM, Hellerstedt WL, Sullivan L, Aday LA, Riegelman R: Teaching excellence in public health: a call to action. Public Health Reports 123(3):405-7, 2008.

Ybarra ML, Diener-West M, Markow D, Leaf PJ, Hamburger M, Boxer P: Linkages between internet and other media violence with seriously violent behavior by youth. Pediatrics 122(5):929-37, 2008.

Pediatric Eye Disease Investigator Group (includes Diener-West M), Christiansen SP, Chandler DL, Holmes JM, Arnold RW, Birch E, Dagi LR, Hoover DL, Klimek DL, Melia BM, Paysse E, Repka MX, Suh DW, Ticho BH, Wallace DK, Weaver RG Jr: Instability of ocular alignment in childhood esotropia. Ophthalmology 115(12):2266-2274, 2008.

Amarasingham R, Diener-West M, Plantinga L, Cunningham AC, Gaskin DJ, Powe NR: Hospital characteristics associated with highly automated and usable clinical information systems in Texas, United States. BMC Medical Informatics and Decision Making 8(1):39, 2008.

Dodson JL, Furth SL, Hsiao CJ, Diener-West M, Levey EB, Wu AW, Gearhart JP: Health related quality of life in adolescents with abnormal bladder function: an assessment using the Child Health and Illness Profile-Adolescent Edition. Journal of Urology 180(4 Suppl):1846-51, 2008.

Pediatric Eye Disease Investigator Group (includes Diener-West M): A randomized trial of near versus distance activities while patching for amblyopia in children aged 3 to less than 7 years. Ophthalmology 115(11):2071-8, 2008.

Pediatric Eye Disease Investigator Group (includes Diener-West M), Repka MX, Kraker RT, Beck RW, Holmes JM, Cotter SA, Birch EE, Astle WF, Chandler DL, Felius J, Arnold RW, Tien DR, Glaser SR: A randomized trial of atropine vs patching for treatment of moderate amblyopia: follow-up at age 10 years. Archives of Ophthalmology 126(8):1039-44, 2008.

Dasenbrook EC, Merlo CA, Diener-West M, Lechtzin N, Boyle MP: Persistent methicillin-resistant Staphylococcus aureus and rate of FEV1 decline in cystic fibrosis. American Journal of Respiratory and Critical Care Medicine 178(8):814-21, 2008.

Salter ML, Go VF, Celentano DD, Diener-West M, Nkhoma CM, Kumwenda N, Taha TE: The role of men in women's acceptance of an intravaginal gel in a randomized clinical trial in Blantyre, Malawi: a qualitative and quantitative analysis. AIDS Care 20(7):853-62, 2008.

Dember LM, Beck GJ, Allon M, Delmez JA, Dixon BS, Greenberg A, Himmelfarb J, Vazquez MA, Gassman JJ, Greene T, Radeva MK, Braden GL, Ikizler TA, Rocco MV, Davidson IJ, Kaufman JS, Meyers CM, Kusek JW, Feldman HI, Dialysis Access Consortium Study Group (includes Diener-West M): Effect of clopidogrel on early failure of arteriovenous fistulas for hemodialysis: a randomized controlled trial. Journal of the American Medical Association 299(18):2164-71, 2008.

McLaughlin SE, Diener-West M, Indurkhya A, Rubin H, Heckmann R, Boyle MP: Improving transition from pediatric to adult cystic fibrosis care: lessons from a national survey of current practices. Pediatrics 121(5):e1160-6, 2008.

Weathers AC, Minkovitz CS, Diener-West M, O'Campo P: The effect of parental immigration authorization on health insurance coverage for migrant Latino children. Journal of Immigrant and Minority Health 10(3):247-54, 2008.

Avery RB, Diener-West M, Reynolds SM, Grossniklaus HE, Green WR, Albert DM: Histopathologic characteristics of choroidal melanoma in eyes enucleated after iodine 125 brachytherapy in the collaborative ocular melanoma study. Archives of Ophthalmology 126(2):207-12, 2008.

Ybarra ML, Diener-West M, Leaf PJ: Examining the overlap in internet harassment and school bullying: implications for school intervention. Journal of Adolescent Health 41(6 Suppl 1):S42-50, 2007.

Merlo CA, Boyle MP, Diener-West M, Marshall BC, Goss CH, Lechtzin N: Incidence and risk factors for multiple antibiotic-resistant Pseudomonas aeruginosa in cystic fibrosis. Chest 132(2):562-8, 2007.

Gilson MM, Diener-West M, Hawkins BS: Comparison of survival among eligible patients not enrolled versus enrolled in the Collaborative Ocular Melanoma Study (COMS) randomized trial of pre-enucleation radiation of large choroidal melanoma. Ophthalmic Epidemiology 14(4):251-7, 2007.

Geer LA, Anna D, Curbow B, Diener-West M, de Joode BW, Mitchell C, Buckley TJ: Survey assessment of worker dermal exposure and underlying behavioral determinants. Journal of Occupational and Environmental Hygiene 4(11):809-20, 2007.

Dodson JL, Diener-West M, Gerson AC, Kaskel FJ, Furth SL: An assessment of health related quality of life using the child health and illness profile-adolescent edition in adolescents with chronic kidney disease due to underlying urological disorders. Journal of Urology 178(2):660-5, 2007.

Hwang CW, Anderson GF, Diener-West M, Powe NR: Comorbidity and outcomes of coronary artery bypass graft surgery at cardiac specialty hospitals versus general hospitals. Medical Care 45(8):720-728, 2007.

Lee CK, Boyle MP, Diener-West M, Brass-Ernst L, Noschese M, Zeitlin PL: Levofloxacin pharmacokinetics in adult cystic fibrosis. Chest 131(3):796-802, 2007.

Amarasingham R, Pronovost PJ, Diener-West M, Goeschel C, Dorman T, Thiemann DR, Powe NR: Measuring clinical information technology in the ICU setting: application in a quality improvement collaborative. Journal of the American Medical Informatics Association 14(3):288-294, 2007.

Alberg AJ, Kouzis A, Genkinger JM, Gallicchio L, Burke AE, Hoffman SC, Diener-West M, Helzlsouer KJ, Comstock GW: A prospective cohort study of bladder cancer risk in relation to active cigarette smoking and household exposure to secondhand cigarette smoke. American Journal of Epidemiology 165(6):660-6, 2007.

Sedrakyan A, Wu A, Sedrakyan G, Diener-West M, Tranquilli M, Elefteriades J: Aprotinin use in thoracic aortic surgery: safety and outcomes. Journal of Thoracic and Cardiovascular Surgery 132(4):909-17, 2006.

Laurence B, Woods D, George D, Onyekwere O, Katz R, Lanzkron S, Diener-West M, Powe N: Self-perceived loss of control and untreated dental decay in African American adults with and without sickle cell disease. Journal of Health Care for the Poor and Underserved 17(3):641-51, 2006.

Arav-Boger R, Battaglia CA, Lazzarotto T, Gabrielli L, Zong JC, Hayward GS, Diener-West M, Landini MP: Cytomegalovirus (CMV)-encoded UL144 (truncated tumor necrosis factor receptor) and outcome of congenital CMV infection. Journal of Infectious Diseases 194(4):464-73, 2006.

Merenstein D, Diener-West M, Halbower AC, Krist A, Rubin HR: The trial of infant response to diphenhydramine: the TIRED Study--a randomized, controlled, patient-oriented trial. Archives of Pediatrics and Adolescent Medicine 160(7):707-712, 2006.

Windish DM, Diener-West M: A clinician-educator's roadmap to choosing and interpreting statistical tests. Journal of General Internal Medicine 21(6):656-60, 2006.

Laurence B, George D, Woods D, Shosanya A, Katz RV, Lanzkron S, Diener-West M, Powe N: The association between sickle cell disease and dental caries in African Americans. Special Care in Dentistry 26(3):95-100, 2006.

Daniel E, Ffytche TJ, Sundar Rao PS, Kempen JH, Diener-West M, Courtright P: Incidence of ocular morbidity among multibacillary leprosy patients during a 2 year course of multidrug therapy. British Journal of Ophthalmology 90(5):568-73, 2006.

Keyhani S, Diener-West M, Powe N: Are development times for pharmaceuticals increasing or decreasing? Health Affairs 25(2):461-8, 2006.

Amarasingham R, Diener-West M, Weiner M, Lehmann H, Herbers JE, Powe NR: Clinical information technology capabilities in four U.S. hospitals: testing a new structural performance measure. Medical Care 44(3):216-224, 2006.

Gallicchio L, Kouzis A, Genkinger JM, Burke AE, Hoffman SC, Diener-West M, Helzlsouer KJ, Comstock GW, Alberg AJ: Active cigarette smoking, household passive smoke exposure, and the risk of developing pancreatic cancer. Preventive Medicine 42(3):200-5, 2006.

Constantine Frangakis $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Peters ME, Vaidya V, Drye LT, Rosenberg PB, Martin BK, Porsteinsson AP, Frangakis CE, Mintzer J, Weintraub D, Schneider LS, Rabins PV, Munro CA, Meinert CL, Lyketsos CG, Dimitri A, for the DIADS-2 Research Group: Sertraline for the treatment of depression in Alzheimer disease: genetic influences. Journal of Geriatric Psychology and Neurology 24(4):222-228, 2011.

Barth AS, Kumordzie A, Frangakis C, Margulies KB, Cappola TP, Tomaselli GF: Reciprocal transcriptional regulation of metabolic and signaling pathways correlates with disease severity in heart failure. Circulation. Cardiovascular Genetics 4(5):475-83, 2011.

Tsapkini K, Frangakis CE, Hillis AE: The function of the left anterior temporal pole: evidence from acute stroke and infarct volume. Brain 134(Pt 10):3094-105, 2011.

Koliatsos VE, Cernak I, Xu L, Song Y, Savonenko A, Crain BJ, Eberhart CG, Frangakis CE, Melnikova T, Kim H, Lee D: A mouse model of blast injury to brain: initial pathological, neuropathological, and behavioral characterization. Journal of Neuropathology and Experimental Neurology 70(5):399-416, 2011.

Azur MJ, Stuart EA, Frangakis C, Leaf PJ: Multiple imputation by chained equations: what is it and how does it work? International Journal of Methods in Psychiatric Research 20(1):40-49, 2011.

Drye LT, Martin BK, Frangakis CE, Meinert CL, Mintzer JE, Munro CA, Porsteinsson AP, Rabins PV, Rosenberg PB, Schneider LS, Weintraub D, Lyketsos CG; for the DIADS-2 Research Group: Do treatment effects vary among differing baseline depression criteria in depression in Alzheimer's disease study ±2 (DIADS-2)? International Journal of Geriatric Psychiatry 26(6):573-583, 2011.

Go VF, Frangakis C, Van Nam L, Sripaipan T, Bergenstrom A, Li F, Latkin C, Celentano DD, Quan VM: Characteristics of high-risk HIV-positive IDUs in Vietnam: implications for future interventions. Substance Use & Misuse 46(4):381-9, 2011.

Georgiades CS, Rodriguez R, Littrup PJ, Frangakis CE, Leveille R, Ahrar K, Atwell TD, Cadeddu J, Trimmer C, Durack JC, Hammers HJ, Meng MV, Raman S, Solomon SB, Zagoria RJ, McLennan G, Laberge JM, Gervais DA, Kee ST: Development of a research agenda for percutaneous renal tumor ablation: proceedings from a multidisciplinary research consensus panel. Journal of Vascular and Interventional Radiology 21(12):1807-16, 2010.

Achy-Brou AC, Frangakis CE, Griswold M: Estimating treatment effects of longitudinal designs using regression models on propensity scores. Biometrics 66(3):824-33, 2010.

Wible BC, Rilling WS, Drescher P, Hieb RA, Saeian K, Frangakis C, Chen Y, Eastwood D, Kim HS: Longitudinal quality of life assessment of patients with hepatocellular carcinoma after primary transarterial chemoembolization. Journal of Vascular and Interventional Radiology 21(7):1024-30, 2010.

Weintraub D, Rosenberg PB, Drye LT, Martin BK, Frangakis C, Mintzer JE, Porsteinsson AP, Schneider LS, Rabins PV, Munro CA, Meinert CL, Lyketsos CG, DIADS-2 Research Group: Sertraline for the treatment of depression in Alzheimer disease: week-24 outcomes. American Journal of Geriatric Psychiatry 18(4):332-40, 2010.

Rosenberg PB, Drye LT, Martin BK, Frangakis C, Mintzer JE, Weintraub D, Porsteinsson AP, Schneider LS, Rabins PV, Munro CA, Meinert CL, Lyketsos CG, DIADS-2 Research Group: Sertraline for the treatment of depression in Alzheimer disease. American Journal of Geriatric Psychiatry 18(2):136-145, 2010.

Postolache TT, Mortensen PB, Tonelli LH, Jiao X, Frangakis C, Soriano JJ, Qin P: Seasonal spring peaks of suicide in victims with and without prior history of hospitalization for mood disorders. Journal of Affective Disorders 121(1-2):88-93, 2010.

An MW, Frangakis CE, Musick BS, Yiannoutsos CT: The need for double-sampling designs in survival studies: an application to monitor PEPFAR. Biometrics 65(1):301-6, 2009.

Stuart EA, Azur M, Frangakis C, Leaf P: Multiple imputation with large data sets: a case study of the Children's Mental Health Initiative. American Journal of Epidemiology 169(9):1133-9, 2009.

Frangakis C: The calibration of treatment effects from clinical trials to target populations. Clinical Trials 6(2):136-40, 2009.

Tan EJ, Rebok GW, Yu Q, Frangakis CE, Carlson MC, Wang T, Ricks M, Tanner EK, McGill S, Fried LP: The long-term relationship between high-intensity volunteering and physical activity in older African American women. Journals of Gerontology Series B 64(2):304-11, 2009.

Cole SR, Frangakis CE: The consistency statement in causal inference: a definition or an assumption? Epidemiology 20(1):3-5, 2009.

Yiannoutsos CT, An MW, Frangakis CE, Musick BS, Braitstein P, Wools-Kaloustian K, Ochieng D, Martin JN, Bacon MC, Ochieng V, Kimaiyo S: Sampling-based approaches to improve estimation of mortality among patient dropouts: experience from a large PEPFAR-funded program in Western Kenya. PLoS One 3(12):e3843, 2008.

Buijs M, Vossen JA, Frangakis C, Hong K, Georgiades CS, Chen Y, Liapi E, Geschwind JF: Nonresectable hepatocellular carcinoma: long-term toxicity in patients treated with transarterial chemoembolization--single-center experience. Radiology 249(1):346-54, 2008.

Huang IC, Frangakis C, Atkinson MJ, Willke RJ, Leite WL, Vogel WB, Wu AW: Addressing ceiling effects in health status measures: a comparison of techniques applied to measures for people with HIV disease. Health Services Research 43(1 Pt 1):327-39, 2008.

Frangakis CE, Wu H: The geometry of inadmissibility of independent observations for estimating a single parameter in two-parameter ordered symmetric problems. Metron 65(3), 2007.

Roland C, Varadhan R, Frangakis CE: Squared polynomial extrapolation methods with cycling: an application to the positron emission tomography problem. Numerical Algorithms 44(2):159-172, 2007.

Segal JB, Griswold M, Achy-Brou A, Herbert R, Bass EB, Dy SM, Millman AE, Wu AW, Frangakis CE: Using propensity scores subclassification to estimate effects of longitudinal treatments: an example using a new diabetes medication. Medical Care 45(10 Supl 2):S149-57, 2007.

Frangakis CE, Rubin DB, An MW, MacKenzie E: Rejoinder to "Principal stratification designs to estimate input data missing due to death." Biometrics 63(3):658-62, 2007.

Frangakis CE, Rubin DB, An MW, MacKenzie

E: Principal stratification designs to estimate input data missing due to death. Biometrics 63(3):641-9, 2007.

Terzidis A, Koutroumpa A, Skalkidis I, Matzavakis I, Malliori M, Frangakis CE, DiScala C, Petridou ET: Water safety: age-specific changes in knowledge and attitudes following a school-based intervention. Injury Prevention 13(2):120-4, 2007.

Bergenstrom A, Go V, Nam LV, Thuy BT, Celentano DD, Frangakis C, Quan VM: Return to post-test counselling by out-of-treatment injecting drug users participating in a cross-sectional survey in north Vietnam. AIDS Care 19(7):935-9, 2007.

Huang IC, Willke RJ, Atkinson MJ, Lenderking WR, Frangakis C, Wu AW: US and UK versions of the EQ-5D preference weights: does choice of preference weights make a difference? Quality of Life Research 16(6):1065-72, 2007.

Baker SG, Frangakis C, Lindeman KS: Estimating efficacy in a proposed randomized trial with initial and later non-compliance. Applied Statistics 56(2):211-221, 2007.

Dassopoulos T, Frangakis C, Cruz-Correa M, Talor MV, Burek CL, Datta L, Nouvet F, Bayless TM, Brant SR: Antibodies to saccharomyces cerevisiae in Crohn's disease: higher titers are associated with a greater frequency of mutant NOD2/CARD15 alleles and with a higher probability of complicated disease. Inflammatory Bowel Diseases 13(2):143-51, 2007.

Farmakakis T, Dessypris N, Alexe DM, Frangakis C, Petoussis G, Malliori M, Petridou TE: Magnitude and object-specific hazards of aspiration and ingestion injuries among children in Greece. International Journal of Pediatric Otorhinolaryngology 71(2):317-24, 2007.

Vlahos NF, Lipari CW, Bankowski B, Lai TH, King JA, Shih IeM, Frangakis C, Zhao Y: Effect of luteal-phase support on endometrial L-selectin ligand expression after recombinant follicle-stimulating hormone and ganirelix acetate for in vitro fertilization. Journal of Clinical Endocrinology and Metabolism 91(10):4043-9, 2006.

Martin BK, Frangakis CE, Rosenberg PB, Mintzer JE, Katz IR, Porsteinsson AP, Schneider LS, Rabins PV, Munro CA, Meinert CL, Niederehe G, Lyketsos CG: Design of depression in Alzheimer's Disease Study-2. American Journal of Geriatric Psychiatry 14(11):920-930, 2006.

Georgiades CS, Liapi E, Frangakis C, Park JU, Kim HW, Hong K, Geschwind JF: Prognostic accuracy of 12 liver staging systems in patients with unresectable hepatocellular carcinoma treated with transarterial chemoembolization. Journal of Vascular and Interventional Radiology 17(10):1619-24, 2006.

Li F, Frangakis CE: Polydesigns and causal inference. Biometrics 62(2):343-51, 2006.

Go VF, Frangakis C, Nam le V, Bergenstrom A, Sripaipan T, Zenilman JM, Celentano DD, Quan VM: High HIV sexual risk behaviors and sexually transmitted disease prevalence among injection drug users in Northern Vietnam: implications for a generalized HIV epidemic. Journal of Acquired Immune Deficiency Syndrome 42(1):108-15, 2006.

Huang IC, Frangakis C, Wu AW: The relationship of excess body weight and health-related quality of life: evidence from a population study in Taiwan. International Journal of Obesity 30(8):1250-9, 2006.

Huang IC, Wu AW, Frangakis C: Do the SF-36 and WHOQOL-BREF measure the same constructs? Evidence from the Taiwan population. Quality of Life Research 15(1):15-24, 2006.

Doan BQ, Sorant AJ, Frangakis CE, Bailey-Wilson JE, Shugart YY: Covariate-based linkage analysis: application of a propensity score as the single covariate consistently improves power to detect linkage. European Journal of Human Genetics 14(9):1018-26, 2006.

Andre Hackman $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Labrique AB, Christian P, Klemm RD, Rashid M, Shamim AA, Massie A, Schulze K, Hackman A, West KP Jr.: A cluster-randomized, placebo-controlled, maternal vitamin A or beta-carotene supplementation trial in Bangladesh: design and methods. Trials 12(1):102, 2011.

Colantuoni E, Surplus G, Hackman A, Arrighi HM, Brookmeyer R: Web-based application to project the burden of Alzheimer's disease. Alzheimer's & Dementia 6(5):425-8, 2010.

Rafael Irizarry $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Guerrero-Preston R, Soudry E, Acero J, Orera M, Moreno-Lopez L, Macia-Colon G, Jaffe A, Berdasco M, Ili-Gangas C, Brebi-Mieville P, Fu Y, Engstrom C, Irizarry RA, Esteller M, Westra W, Koch W, Califano J, Sidransky D: NID2 and HOXA9 promoter hypermethylation as biomarkers for prevention and early detection in oral cavity squamous cell carcinoma tissues and saliva. Cancer Prevention Research 4(7):1061-72, 2011.

Hansen KD, Wu Z, Irizarry RA, Leek JT: Sequencing technology does not eliminate biological variability. Nature Biotechnology 29(7):572-3, 2011.

Niranjan TS, Adamczyk A, Bravo HC, Taub MA, Wheelan SJ, Irizarry R, Wang T: Effective detection of rare variants in pooled DNA samples using Cross-pool tailcurve analysis. Genome Biology 12(9):R93, 2011.

Hansen KD, Timp W, Bravo HC, Sabunciyan S, Langmead B, McDonald OG, Wen B, Wu H, Liu Y, Diep D, Briem E, Zhang K, Irizarry RA, Feinberg AP: Increased methylation variation in epigenetic domains across cancer types. Nature Genetics 43(8):768-75, 2011.

McCall MN, Irizarry RA: Thawing frozen robust multi-array analysis (fRMA). BMC Bioinformatics 12(1):369, 2011.

Yegnasubramanian S, Wu Z, Haffner MC, Esopi D, Aryee MJ, Badrinath R, He TL, Morgan JD, Carvalho B, Zheng Q, De Marzo AM, Irizarry RA, Nelson WG: Chromosome-wide mapping of DNA methylation patterns in normal and malignant prostate cells reveals pervasive methylation of gene-associated and conserved intergenic sequences. BMC Genomics 12(1):313, 2011.

Shan L, Yang HC, Rabi SA, Bravo HC, Shroff NS, Irizarry RA, Zhang H, Margolick JB, Siliciano JD, Siliciano RF: Influence of host gene transcription level and orientation on HIV-1 latency in a primary-cell model. Journal of Virology 85(11):5384-93, 2011.

McCall MN, Murakami PN, Lukk M, Huber W, Irizarry RA: Assessments of Affymetrix GeneChip microarray quality for laboratories and single samples. BMC Bioinformatics 12(1):137, 2011.

McCall MN, Uppal K, Jaffee HA, Zilliox MJ, Irizarry RA: The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes. Nucleic Acids Research 39(Database issue):D1011-5, 2011.

Halper-Stromberg E, Frelin L, Ruczinski I, Scharpf R, Jie C, Carvalho B, Hao H, Hetrick K, Jedlicka A, Dziedzic A, Doheny K, Scott AF, Baylin S, Pevsner J, Spencer F, Irizarry RA: Performance assessment of copy number microarray platforms using a spike-in experiment. Bioinformatics 27(8):1052-1060, 2011.

Ritchie ME, Liu R, Carvalho BS, The Australia and New Zealand Multiple Sclerosis Genetics Consortium (ANZgene), Irizarry RA: Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips. BMC Bioinformatics 12(1):68, 2011.

Scharpf RB, Ruczinski I, Carvalho B, Doan B, Chakravarti A, Irizarry RA: A multilevel model to address batch effects in copy number estimation using SNP arrays. Biostatistics 12(1):33-50, 2011.

Aryee MJ, Wu Z, Ladd-Acosta C, Herb B, Feinberg AP, Yegnasubramanian S, Irizarry RA: Accurate genome-scale percentage DNA methylation estimates from microarray data. Biostatistics 12(2):197-210, 2011.

Taub MA, Corrada Bravo H, Irizarry RA: Overcoming bias and systematic errors in next generation sequencing data. Genome Medicine 2(12):87, 2010.

Bravo HC, Irizarry RA: Model-based quality assessment and base-calling for second-generation sequencing data. Biometrics 66(3):665-74, 2010.

Kim K, Doi A, Wen B, Ng K, Zhao R, Cahan P, Kim J, Aryee MJ, Ji H, Ehrlich LI, Yabuuchi A, Takeuchi A, Cunniff KC, Hongguang H, McKinney-Freeman S, Naveiras O, Yoon TJ, Irizarry RA, Jung N, Seita J, Hanna J, Murakami P, Jaenisch R, Weissleder R, Orkin SH, Weissman IL, Feinberg AP, Daley GQ: Epigenetic memory in induced pluripotent stem cells. Nature 467(7313):285-90, 2010.

Carvalho BS, Irizarry RA: A framework for oligonucleotide microarray preprocessing. Bioinformatics 26(10):2363-7, 2010.

Ji H, Ehrlich LI, Seita J, Murakami P, Doi A, Lindau P, Lee H, Aryee MJ, Irizarry RA, Kim K, Rossi DJ, Inlay MA, Serwold T, Karsunky H, Ho L, Daley GQ, Weissman IL, Feinberg AP: Comprehensive methylome map of lineage commitment from haematopoietic progenitors. Nature 467(7313):338-42, 2010.

Leek JT, Scharpf RB, Bravo HC, Simcha D, Langmead B, Johnson WE, Geman D, Baggerly K, Irizarry RA: Tackling the widespread and critical impact of batch effects in high-throughput data. Nature Reviews Genetics 11(10):733-9, 2010.

Feinberg AP, Irizarry RA, Fradin D, Aryee MJ, Murakami P, Aspelund T, Eiriksdottir G, Harris TB, Launer L, Gudnason V, Fallin MD: Personalized epigenomic signatures that are stable over time and covary with body mass index. Science Translational Medicine 2(49):49ra67, 2010.

Wu H, Caffo B, Jaffee HA, Irizarry RA, Feinberg AP: Redefining CpG islands using hidden Markov models. Biostatistics 11(3):499-514, 2010.

Shi L, Campbell G, ..., Irizarry RA, et al: The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models. Nature Biotechnology 28(8):827-38, 2010.

Schafer E, Irizarry R, Negi S, McIntyre E, Small D, Figueroa ME, Melnick A, Brown P: Promoter hypermethylation in MLL-r infant acute lymphoblastic leukemia: biology and therapeutic targeting. Blood 115(23):4798-809, 2010.

Wu H, Irizarry RA, Bravo HC: Intensity normalization improves color calling in SOLiD sequencing. Nature Methods 7(5):336-7, 2010.

Carvalho BS, Louis TA, Irizarry RA: Quantifying uncertainty in genotype calls. Bioinformatics 26(2):242-9, 2010.

McCall MN, Bolstad BM, Irizarry RA: Frozen robust multiarray analysis (fRMA). Biostatistics 11(2):242-53, 2010.

Sah S, McCall MN, Eveleigh D, Wilson M, Irizarry RA: Performance evaluation of commercial miRNA expression array platforms. BMC Research Notes 3(1):80, 2010.

Feinberg AP, Irizarry RA: Evolution in health and medicine Sackler colloquium: Stochastic epigenetic variation as a driving force of development, evolutionary adaptation, and disease. Proceedings of the National Academy of Sciences 107 Suppl 1:1757-64, 2010.

Lopez-Romero P, Gonzalez MA, Callejas S, Dopazo A, Irizarry RA: Processing of Agilent microRNA array data. BMC Research Notes 3:18, 2010.

Irizarry RA, Wu H, Feinberg AP: A species-generalized probabilistic model-based definition of CpG islands. Mammalian Genome 20(9-10):674-80, 2009.

Irizarry RA, Wang C, Zhou Y, Speed TP: Gene set enrichment analysis made simple. Statistical Methods in Medical Research 18(6):565-75, 2009.

Doi A, Park IH, Wen B, Murakami P, Aryee MJ, Irizarry R, Herb B, Ladd-Acosta C, Rho J, Loewer S, Miller J, Schlaeger T, Daley GQ, Feinberg AP: Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts. Nature Genetics 41(12):1350-3, 2009.

Ritchie ME, Carvalho BS, Hetrick KN, Tavare S, Irizarry RA: R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips. Bioinformatics 25(19):2621-3, 2009.

Wen B, Wu H, Shinkai Y, Irizarry RA, Feinberg AP: Large histone H3 lysine 9 dimethylated chromatin blocks distinguish differentiated from embryonic stem cells. Nature Genetics 41(2):246-50, 2009.

Irizarry RA, Ladd-Acosta C, Wen B, Wu Z, Montano C, Onyango P, Cui H, Gabo K, Rongione M, Webster M, Ji H, Potash JB, Sabunciyan S, Feinberg AP: The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores. Nature Genetics 41(2):178-86, 2009.

Yegnasubramanian S, Haffner MC, Zhang Y, Gurel B, Cornish TC, Wu Z, Irizarry RA, Morgan J, Hicks J, DeWeese TL, Isaacs WB, Bova GS, De Marzo AM, Nelson WG: DNA hypomethylation arises later in prostate cancer progression than CpG island hypermethylation and contributes to metastatic tumor heterogeneity. Cancer Research 68(21):8954-67, 2008.

Wen B, Wu H, Bjornsson H, Green RD, Irizarry R, Feinberg AP: Overlapping euchromatin/heterochromatin- associated marks are enriched in imprinted gene regions and predict allele-specific modification. Genome Research 18(11):1806-13, 2008.

Wang W, Carvalho B, Miller ND, Pevsner J, Chakravarti A, Irizarry RA: Estimating genome-wide copy number using allele-specific mixture models. Journal of Computational Biology 15(7):857-66, 2008.

McCall MN, Irizarry RA: Consolidated strategy for the analysis of microarray spike-in data. Nucleic Acids Research 36(17):e108, 2008.

Bjornsson HT, Sigurdsson MI, Fallin MD, Irizarry RA, Aspelund T, Cui H, Yu W, Rongione MA, Ekstrom TJ, Harris TB, Launer LJ, Eiriksdottir G, Leppert MF, Sapienza C, Gudnason V, Feinberg AP: Intra-individual change over time in DNA methylation with familial clustering. Journal of the American Medical Association 299(24):2877-83, 2008.

Bjornsson HT, Albert TJ, Ladd-Acosta CM, Green RD, Rongione MA, Middle CM, Irizarry RA, Broman KW, Feinberg AP: SNP-specific array-based allele-specific expression analysis. Genome Research 18(5):771-9, 2008.

Irizarry RA, Ladd-Acosta C, Carvalho B, Wu H, Brandenburg SA, Jeddeloh JA, Wen B, Feinberg AP: Comprehensive high-throughput arrays for relative methylation (CHARM). Genome Research 18(5):780-90, 2008.

Lin S, Carvalho B, Cutler DJ, Arking DE, Chakravarti A, Irizarry RA: Validation and extension of an empirical Bayes method for SNP calling on Affymetrix microarrays. Genome Biology 9(4):R63, 2008.

Peyser BD, Irizarry R, Spencer FA: Statistical analysis of fitness data determined by TAG hybridization on microarrays. Methods in Molecular Biology 416:369-82, 2007.

Meluh PB, Pan X, Yuan DS, Tiffany C, Chen O, Sookhai-Mahadeo S, Wang X, Peyser BD, Irizarry R, Spencer FA, Boeke JD: Analysis of genetic interactions on a genome-wide scale in budding yeast: diploid-based synthetic lethality analysis by microarray. Methods in Molecular Biology 416:221-48, 2007.

Rodriguez-Quinones JF, Irizarry RA, Diaz-Blanco NL, Rivera-Molina FE, Gomez-Garzon D, Rodriguez-Medina JR: Global mRNA expression analysis in myosin II deficient strains of Saccharomyces cerevisiae reveals an impairment of cell integrity functions. BMC Genomics 9(1):34, 2008.

Bengtsson H, Irizarry R, Carvalho B, Speed TP: Estimation and assessment of raw copy numbers at the single locus level. Bioinformatics 24(6):759-67, 2008.

Wu Z, Irizarry RA: A statistical framework for the analysis of microarray probe-level data. Annals of Applied Statistics 1(2):333-357, 2007.

Zilliox MJ, Irizarry RA: A gene expression bar code for microarray data. Nature Methods 4(11):911-913, 2007.

Loyo-Berrios NI, Irizarry R, Hennessey JG, Tao XG, Matanoski G: Air pollution sources and childhood asthma attacks in Catano, Puerto Rico. American Journal of Epidemiology 165(8):927-35, 2007.

Carvalho B, Bengtsson H, Speed TP, Irizarry RA: Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data. Biostatistics 8(2):485-99, 2007.

Wheelan SJ, Scheifele LZ, Martinez-Murillo F, Irizarry RA, Boeke JD: Eukaryotic transposable elements and genome evolution special feature: transposon insertion site profiling chip (TIP-chip). Proceedings of the National Academy of Sciences 103(47):17632-7, 2006.

Rayner TF, Rocca-Serra P, Spellman PT, Causton HC, Farne A, Holloway E, Irizarry RA, Liu J, Maier DS, Miller M, Petersen K, Quackenbush J, Sherlock G, Stoeckert CJ Jr, White J, Whetzel PL, Wymore F, Parkinson H, Sarkans U, Ball CA, Brazma A: A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. BMC Bioinformatics 7(1):489, 2006.

Wheelan SJ, Martinez-Murillo F, Irizarry RA, Boeke JD: Stacking the deck: double-tiled DNA microarrays. Nature Methods 3(11):903-7, 2006.

Yuan DS, Irizarry RA: High-resolution spatial normalization for microarrays containing embedded technical replicates. Bioinformatics 22(24):3054-60, 2006.

Katz S, Irizarry RA, Lin X, Tripputi M, Porter MW: A summarization approach for Affymetrix GeneChip data using a reference training set from a large, biologically diverse database. BMC Bioinformatics 7:464, 2006.

Irizarry RA, Cope LM, Wu Z: Feature-level exploration of a published Affymetrix GeneChip control dataset. Genome Biology 7(8):404, 2006.

Takahashi H, McCaffery JM, Irizarry RA, Boeke JD: Nucleocytosolic acetyl-coenzyme a synthetase is required for histone acetylation and global transcription. Molecular Cell 23(2):207-17, 2006.

Dipietro JA, Caulfield LE, Irizarry RA, Chen P, Merialdi M, Zavaleta N: Prenatal development of intrafetal and maternal-fetal synchrony. Behavioral Neuroscience 120(3):687-701, 2006.

Irizarry RA, Wu Z, Jaffee HA: Comparison of Affymetrix GeneChip expression measures. Bioinformatics 22(7):789-94, 2006.

Zeger SL, Irizarry R, Peng RD: On time series analysis of public health and biomedical data. Annual Review of Public Health 27:57-79, 2006.

Cope L, Hartman SM, Gohlmann HW, Tiesman JP, Irizarry RA: Analysis of Affymetrix GeneChip data using amplified RNA. Biotechniques 40(2):165-6, 168, 170, 2006.

Quackenbush J, Stoeckert C, Ball C, Brazma A, Gentleman R, Huber W, Irizarry R, Salit M, Sherlock G, Spellman P, Winegarden N: Top-down standards will not serve systems biology. Nature 440(7080):24, 2006.

Ooi SL, Pan X, Peyser BD, Ye P, Meluh PB, Yuan DS, Irizarry RA, Bader JS, Spencer FA, Boeke JD: Global synthetic-lethality analysis and yeast functional profiling. Trends in Genetics 22(1):56-63, 2006.

Lechtzin N, John M, Irizarry R, Merlo C, Diette GB, Boyle MP: Outcomes of adults with cystic fibrosis infected with antibiotic-resistant Pseudomonas aeruginosa. Respiration 73(1):27-33, 2006.

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McCall MN, Uppal K, Jaffee HA, Zilliox MJ, Irizarry RA: The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes. Nucleic Acids Research 39(Database issue):D1011-5, 2011.

Wu H, Caffo B, Jaffee HA, Irizarry RA, Feinberg AP: Redefining CpG islands using hidden Markov models. Biostatistics 11(3):499-514, 2010.

Irizarry RA, Wu Z, Jaffee HA: Comparison of Affymetrix GeneChip expression measures. Bioinformatics 22(7):789-94, 2006.

Hongkai Ji $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Wu H, Ji H: JAMIE: A software tool for jointly analyzing multiple ChIP-chip experiments. Methods in Molecular Biology 802:363-75, 2012.

Ji H, Wu G, Zhan X, Nolan A, Koh C, De Marzo A, Doan HM, Fan J, Cheadle C, Fallahi M, Cleveland JL, Dang CV, Zeller KI: Cell-type independent MYC target genes reveal a primordial signature involved in biomass accumulation. PLoS One 6(10):e26057, 2011.

Wang QF, Wu G, Mi S, He F, Wu J, Dong J, Luo RT, Mattison R, Kaberlein JJ, Prabhakar S, Ji H, Thirman MJ: MLL fusion proteins preferentially regulate a subset of wild-type MLL target genes in the leukemic genome. Blood 117(25):6895-905, 2011.

Chen L, Wu G, Ji H: hmChIP: a database and web server for exploring publicly available human and mouse ChIP-seq and ChIP-chip data. Bioinformatics 27(10):1447-8, 2011.

Ji H, Jiang H, Ma W, Wong WH: Using CisGenome to analyze ChIP-chip and ChIP-seq data. Current Protocols in Bioinformatics Chapter 2:Unit2.13, 2011.

Sun Y, Fan XY, Cao DM, Tang W, He K, Zhu JY, He JX, Bai MY, Zhu S, Oh E, Patil S, Kim TW, Ji H, Wong WH, Rhee SY, Wang ZY: Integration of brassinosteroid signal transduction with the transcription network for plant growth regulation in Arabidopsis. Developmental Cell 19(5):765-77, 2010.

Kim K, Doi A, Wen B, Ng K, Zhao R, Cahan P, Kim J, Aryee MJ, Ji H, Ehrlich LI, Yabuuchi A, Takeuchi A, Cunniff KC, Hongguang H, McKinney-Freeman S, Naveiras O, Yoon TJ, Irizarry RA, Jung N, Seita J, Hanna J, Murakami P, Jaenisch R, Weissleder R, Orkin SH, Weissman IL, Feinberg AP, Daley GQ: Epigenetic memory in induced pluripotent stem cells. Nature 467(7313):285-90, 2010.

Ji H: Computational analysis of ChIP-seq data. Methods in Molecular Biology 674:143-59, 2010.

Huang CR, Schneider AM, Lu Y, Niranjan T, Shen P, Robinson MA, Steranka JP, Valle D, Civin CI, Wang T, Wheelan SJ, Ji H, Boeke JD, Burns KH: Mobile interspersed repeats are major structural variants in the human genome. Cell 141(7):1171-82, 2010.

Wu H, Ji H: JAMIE: joint analysis of multiple ChIP-chip experiments. Bioinformatics 26(15):1864-70, 2010.

Lee EY, Ji H, Ouyang Z, Zhou B, Ma W, Vokes SA, McMahon AP, Wong WH, Scott MP: Hedgehog pathway-regulated gene networks in cerebellum development and tumorigenesis. Proceedings of the National Academy of Sciences 107(21):9736-41, 2010.

Ji H, Liu XS: Analyzing 'omics data using hierarchical models. Nature Biotechnology 28(4):337-40, 2010.

Niakan KK, Ji H, Maehr R, Vokes SA, Rodolfa KT, Sherwood RI, Yamaki M, Dimos JT, Chen AE, Melton DA, McMahon AP, Eggan K: Sox17 promotes differentiation in mouse embryonic stem cells by directly regulating extraembryonic gene expression and indirectly antagonizing self-renewal. Genes and Development 24(3):312-26, 2010.

Judy JT, Ji H: TileProbe: modeling tiling array probe effects using publicly available data. Bioinformatics 25(18):2369-75, 2009.

Nishi Y, Ji H, Wong WH, McMahon AP, Vokes SA: Modeling the spatio-temporal network that drives patterning in the vertebrate central nervous system. Biochimica et Biophysica Acta 1789(4):299-305, 2009.

Ji H, Jiang H, Ma W, Johnson DS, Myers RM, Wong WH: An integrated software system for analyzing ChIP-chip and ChIP-seq data. Nature Biotechnology 26(11):1293-300, 2008.

Vokes SA, Ji H, Wong WH, McMahon AP: A genome-scale analysis of the cis-regulatory circuitry underlying sonic hedgehog-mediated patterning of the mammalian limb. Genes and Development 22(19):2651-63, 2008.

Vokes SA, Ji H, McCuine S, Tenzen T, Giles S, Zhong S, Longabaugh WJ, Davidson EH, Wong WH, McMahon AP: Genomic characterization of Gli-activator targets in sonic hedgehog-mediated neural patterning. Development 134(10):1977-89, 2007.

Paik JH, Kollipara R, Chu G, Ji H, Xiao Y, Ding Z, Miao L, Tothova Z, Horner JW, Carrasco DR, Jiang S, Gilliland DG, Chin L, Wong WH, Castrillon DH, DePinho RA: FoxOs are lineage-restricted redundant tumor suppressors and regulate endothelial cell homeostasis. Cell 128(2):309-23, 2007.

Ji H, Vokes SA, Wong WH: A comparative analysis of genome-wide chromatin immunoprecipitation data for mammalian transcription factors. Nucleic Acids Research 34(21):e146, 2006.

Ji H, Wong WH: Computational biology: toward deciphering gene regulatory information in mammalian genomes. Biometrics 62(3):645-63, 2006.

Kim RS, Ji H, Wong WH: An improved distance measure between the expression profiles linking co-expression and co-regulation in mouse. BMC Bioinformatics 7:44, 2006.

Ben Langmead $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Frazee AC, Langmead B, Leek JT: ReCount: A multi-experiment resource of analysis-ready RNA-seq gene count datasets. BMC Bioinformatics 12(1):449, 2011.

Hansen KD, Timp W, Bravo HC, Sabunciyan S, Langmead B, McDonald OG, Wen B, Wu H, Liu Y, Diep D, Briem E, Zhang K, Irizarry RA, Feinberg AP: Increased methylation variation in epigenetic domains across cancer types. Nature Genetics 43(8):768-75, 2011.

Langmead B: Aligning short sequencing reads with Bowtie. Current Protocols in Bioinformatics Chapter 11:Unit 11.7, 2010.

Leek JT, Scharpf RB, Bravo HC, Simcha D, Langmead B, Johnson WE, Geman D, Baggerly K, Irizarry RA: Tackling the widespread and critical impact of batch effects in high-throughput data. Nature Reviews Genetics 11(10):733-9, 2010.

Langmead B, Hansen KD, Leek JT: Cloud-scale RNA-sequencing differential expression analysis with Myrna. Genome Biology 11(8):R83, 2010.

Schatz MC, Langmead B, Salzberg SL: Cloud computing and the DNA data race. Nature Biotechnology 28(7):691-3, 2010.

Langmead B, Schatz MC, Lin J, Pop M, Salzberg SL: Searching for SNPs with cloud computing. Genome Biology 10(11):R134, 2009.

Langmead B, Trapnell C, Pop M, Salzberg SL: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biology 10(3):R25, 2009.

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Frazee AC, Langmead B, Leek JT: ReCount: A multi-experiment resource of analysis-ready RNA-seq gene count datasets. BMC Bioinformatics 12(1):449, 2011.

Leek JT, Taub MA, Pineda FJ: Cooperation between referees and authors increases peer review accuracy. PLoS One 6(11):e26895, 2011.

Hansen KD, Wu Z, Irizarry RA, Leek JT: Sequencing technology does not eliminate biological variability. Nature Biotechnology 29(7):572-3, 2011.

Leek JT: Asymptotic conditional singular value decomposition for high-dimensional genomic data. Biometrics 67(2):344-52, 2011.

Colantuoni C, Lipska BK, Ye T, Hyde TM, Tao R, Leek JT, Colantuoni EA, Elkahloun AG, Herman MM, Weinberger DR, Kleinman JE: Temporal dynamics and genetic control of transcription in the human prefrontal cortex. Nature 478(7370):519-23, 2011.

Desai KH, Tan CS, Leek JT, Maier RV, Tompkins RG, Storey JD, and the Inflammation and the Host Response to Injury Large-Scale Collaborative Research Program: Dissecting inflammatory complications in critically injured patients by within-patient gene expression changes: a longitudinal clinical genomics study. PLoS Medicine 8(9):e1001093, 2011.

Leek JT, Storey JD: The joint null criterion for multiple hypothesis tests. Statistical Applications in Genetics and Molecular Biology 10(1):Article 28, 2011.

Woo S, Leek JT, Storey JD: A computationally efficient modular optimal discovery procedure. Bioinformatics 27(4):509-15, 2011.

Leek JT, Scharpf RB, Bravo HC, Simcha D, Langmead B, Johnson WE, Geman D, Baggerly K, Irizarry RA: Tackling the widespread and critical impact of batch effects in high-throughput data. Nature Reviews Genetics 11(10):733-9, 2010.

Langmead B, Hansen KD, Leek JT: Cloud-scale RNA-sequencing differential expression analysis with Myrna. Genome Biology 11(8):R83, 2010.

Lu R, Markowetz F, Unwin RD, Leek JT, Airoldi EM, MacArthur BD, Lachmann A, Rozov R, Ma'ayan A, Boyer LA, Troyanskaya OG, Whetton AD, Lemischka IR: Systems-level dynamic analyses of fate change in murine embryonic stem cells. Nature 462(7271):358-62, 2009.

Leek JT: The tspair package for finding top scoring pair classifiers in R. Bioinformatics 25(9):1203-4, 2009.

Leek JT, Storey JD: A general framework for multiple testing dependence. Proceedings of the National Academy of Sciences 105(48):18718-23, 2008.

Leek JT, Storey JD: Capturing heterogeneity in gene expression studies by surrogate variable analysis. PLoS Genetics 3(9):1724-35, 2007.

Akey JM, Biswas S, Leek JT, Storey JD: On the design and analysis of gene expression studies in human populations. Nature Genetics 39(7):807-8, 2007.

Storey JD, Dai JY, Leek JT: The optimal discovery procedure for large-scale significance testing, with applications to comparative microarray experiments. Biostatistics 8(2):414-32, 2007.

Leek JT, Monsen E, Dabney AR, Storey JD: EDGE: extraction and analysis of differential gene expression. Bioinformatics 22(11):1412, 2006.

Han Liu $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Liu H, Roeder K, Wasserman L: Stability approach to regularization selection (StARS) for high dimensional graphical models. Advances in Neural Information Processing Systems 23, 2010.

Liu H, Chen X, Lafferty J, Wasserman L: Graph-valued regression. Advances in Neural Information Processing Systems 23, 2010.

Liu H, Chen X: Multivariate dyadic regression trees for sparse learning problems. Advances in Neural Information Processing Systems 23, 2010.

Liu H, Zhang J, Jiang X, Liu J: The group Dantzig selector. Thirteenth International Conference on Artificial Intelligence and Statistics 9:461-468, 2010.

Bailey P, White RW, Liu H, Kumaran G: Mining past query trails to label long and rare search engine queries. ACM Transactions on the Web 1(3):1-25, 2010.

Chen X, Liu Y, Liu H, Carbonell JG: Learning spatial-temporal varying graphs with applications to climate data analysis. Proceedings of the Twenty-Fourth Conference on Artificial Intelligence 2010.

Liu H, Lafferty J, Wasserman L: The nonparanormal: semiparametric estimation of high dimensional undirected graphs. Journal of Machine Learning Research 10:2295-2328, 2009.

Liu H, Chen X: Nonparametric greedy algorithm for the sparse learning problems. Advances in Neural Information Processing Systems 22, 2009.

Liu H, Palatucci M, Zhang J: Blockwise coordinate descent procedures for the multi-task lasso, with applications to neural semantic basis discovery. Twenty-Sixth International Conference on Machine Learning, 2009.

Ravikumar P, Lafferty J, Liu H, Wasserman L: Sparse additive models. Journal of the Royal Statistical Society-B 71(5):1009-1030, 2009.

Liu H, Zhang J: On the estimation consistency of the group lasso and its applications. Twelfth International Conference on Artificial Intelligence and Statistics 5:376-383, 2009.

Liu H, Lafferty J, Wasserman L: Nonparametric regression and classification with joint sparsity constraints. Advances in Neural Information Processing Systems 21, 2008.

Palatucci M, Mitchell T, Liu H: Discovering a semantic basis of neural activity using simultaneous spare approximation. Sparse Optimization and Variable Selection Workshop, 2008.

Ravikumar P, Liu H, Lafferty H, Wasserman L: SpAM: Sparse additive models. Advances in Neural Information Processing Systems 20, 2007.

Liu H, Lafferty J, Wasserman L: Sparse nonparametric density estimation in high dimensions using the rodeo. Eleventh International Conference on Artificial Intelligence and Statistics 2:283-290, 2007.

Bonner A, Liu H: Towards the prediction of protein abundance from tandem mass spectrometry data. Sixth SIAM International Conference on Data Mining 2006.

Zhang J, Liu H, Ling TW, Bruckner RM, Tjoa AM: A framework for efficient association rule mining in XML data. Journal of Database Management 17(3):19-40, 2006.

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Appel LJ, Clark JM, Yeh HC, Wang NY, Coughlin JW, Daumit G, Miller ER 3rd, Dalcin A, Jerome GJ, Geller S, Noronha G, Pozefsky T, Charleston J, Reynolds JB, Durkin N, Rubin RR, Louis TA, Brancati FL: Comparative effectiveness of weight-loss interventions in clinical practice. New England Journal of Medicine 365(21):1959-68, 2011.

Gangaputra SS, Altaweel MM, Peng Q, Friedman DS, Rao PK, Foster CS, Kim RY, Reed SB, Srivastava SK, Wong IG, Kempen JH, MUST Trial Research Group (includes Louis T): Morphologic assessment for glaucoma in the Multicenter Uveitis Steroid Treatment (MUST) trial. Ocular Immunology and Inflammation 19(4):267-74, 2011.

Louis TA, Paddock SM: Percentile-based empirical distribution function estimates for performance evaluation of healthcare providers. Applied Statistics 60(4):575-589, 2011.

Forrest CB, Bevans KB, Riley AW, Crespo R, Louis TA: School outcomes of children with special health care needs. Pediatrics 128(2):303-12, 2011.

Eckel SP, Bandeen-Roche K, Chaves PH, Fried LP, Louis TA: Surrogate screening models for the low physical activity criterion of frailty. Aging Clinical and Experimental Research 23(3):209-16, 2011.

The Multicenter Uveitis Steroid Treatment (MUST) Trial Research Group; Writing Committee, Kempen JH, Altaweel MM, Holbrook JT, Jabs DA, Louis TA, Sugar EA, Thorne JE: Randomized comparison of systemic anti-inflammatory therapy versus fluocinolone acetonide implant for intermediate, posterior, and panuveitis: The Multicenter Uveitis Steroid Treatment Trial. Ophthalmology 118(10):1916-1926, 2011.

An MW, Reich NG, Crawford SO, Brookmeyer R, Louis TA, Nelson KE: A stochastic simulator of a blood product donation environment with demand spikes and supply shock. PLoS One 6(7):e21752, 2011.

Dixon BS, Beck GJ, Dember LM, Vazquez MA, Greenberg A, Delmez JA, Allon M, Himmelfarb J, Hu B, Greene T, Radeva MK, Davidson IJ, Ikizler TA, Braden GL, Lawson JH, Cotton JR Jr, Kusek JW, Feldman HI, Dialysis Access Consortium (DAC) Study Group (includes Louis T): Use of aspirin associates with longer primary patency of hemodialysis grafts. Journal of the American Society of Nephrology 22(4):773-81, 2011.

Rosenheck RA, Krystal JH, Lew R, Barnett PG, Fiore L, Valley D, Thwin SS, Vertrees JE, Liang MH, CSP555 Research Group (includes Louis T): Long-acting risperidone and oral antipsychotics in unstable schizophrenia. New England Journal of Medicine 364(9):842-51, 2011.

Ho YY, Parmigiani G, Louis TA, Cope LM: Modeling liquid association. Biometrics 67(1):133-41, 2011.

Crump KS, Chen C, Louis TA: The future use of in vitro data in risk assessment to set human exposure standards: challenging problems and familiar solutions. Environmental Health Perspectives 118(10):1350-4, 2010.

Zhou Y, Dominici F, Louis TA: A smoothing approach for masking spatial data. Annals of Applied Statistics 4(3):1451-1475, 2010.

Cohen SA, Ahmed S, Klassen AC, Agree EM, Louis TA, Naumova EN: Childhood Hib vaccination and pneumonia and influenza burden in US seniors. Vaccine 28(28):4462-9, 2010.

Yeh HC, Clark JM, Emmons KE, Moore RH, Bennett GG, Warner ET, Sarwer DB, Jerome GJ, Miller ER, Volger S, Louis TA, Wells B, Wadden TA, Colditz GA, Appel LJ: Independent but coordinated trials: insights from the practice-based Opportunities for Weight Reduction Trials Collaborative Research Group. Clinical Trials 7(4):322-32, 2010.

Paynter NP, Sharrett AR, Louis TA, Rosamond W, Folsom AR, Coresh J: Paired comparison of observed and expected coronary heart disease rates over 12 years from the Atherosclerosis Risk In Communities Study. Annals of Epidemiology 20(9):683-690, 2010.

Cohen SA, Klassen AC, Ahmed S, Agree EM, Louis TA, Naumova EN: Trends for influenza and pneumonia hospitalization in the older population: age, period, and cohort effects. Epidemiology and Infection 138(8):1135-45, 2010.

Li Q, Fallin MD, Louis TA, Lasseter VK, McGrath JA, Avramopoulos D, Wolyniec PS, Valle D, Liang KY, Pulver AE, Ruczinski I: Detection of SNP-SNP interactions in trios of parents with schizophrenic children. Genetic Epidemiology 34(5):396-406, 2010.

Louis TA: Discussion of "conundrums with uncertainty factors." Risk Analysis 30(3):346-8, 2010.

Crump KS, Chen C, Chiu WA, Louis TA, Portier CJ, Subramaniam RP, White PD: What role for biologically based dose-response models in estimating low-dose risk? Environmental Health Perspectives 118(5):585-8, 2010.

Louis TA, Ruczinski I: Efficient evaluation of ranking procedures when the number of units is large, with application to SNP identification. Biometrical Journal 52(1):34-49, 2010.

Carvalho BS, Louis TA, Irizarry RA: Quantifying uncertainty in genotype calls. Bioinformatics 26(2):242-9, 2010.

Zhou Y, Dominici F, Louis TA: Racial disparities in risks of mortality in a sample of the US Medicare population. Applied Statistics 59(2):319-339, 2009.

D'Armiento JM, Scharf SM, Roth MD, Connett JE, Ghio A, Sternberg D, Goldin JG, Louis TA, Mao JT, O'Connor GT, Ramsdell JW, Ries AL, Schluger NW, Sciurba FC, Skeans MA, Voelker H, Walter RE, Wendt CH, Weinmann GG, Wise RA, Foronjy RF: Eosinophil and T cell markers predict functional decline in COPD patients. Respiratory Research 10:113, 2009.

Luo S, Crainiceanu CM, Louis TA, Chatterjee N: Bayesian inference for smoking cessation with a latent cure state. Biometrics 65(3):970-8, 2009.

Chu H, Chen S, Louis TA: Random effects models in a meta-analysis of the accuracy of two diagnostic tests without a gold standard. Journal of the American Statistical Association 104(486):512-523, 2009.

Dixon BS, Beck GJ, Vazquez MA, Greenberg A, Delmez JA, Allon M, Dember LM, Himmelfarb J, Gassman JJ, Greene T, Radeva MK, Davidson IJ, Ikizler TA, Braden GL, Fenves AZ, Kaufman JS, Cotton JR Jr, Martin KJ, McNeil JW, Rahman A, Lawson JH, Whiting JF, Hu B, Meyers CM, Kusek JW, Feldman HI, DAC Study Group (includes Louis T): Effect of dipyridamole plus aspirin on hemodialysis graft patency. New England Journal of Medicine 360(21):2191-201, 2009.

Lin R, Louis TA, Paddock SM, Ridgeway G: Ranking USRDS provider specific SMRs from 1998-2001. Health Services and Outcomes Research Methodology 9(1):22-38, 2009.

Louis TA, Zeger SL: Effective communication of standard errors and confidence intervals. Biostatistics 10(1):1-2, 2009.

Luo S, Crainiceanu CM, Louis TA, Chatterjee N: Analysis of smoking cessation patterns using a stochastic mixed-effects model With a latent cured state. Journal of the American Statistical Association 103(483):1002-1013, 2008.

Crawford SO, Reich NG, An MW, Brookmeyer R, Louis TA, Nelson KE, Notari EP, Trouern-Trend J, Zou S: Regional and temporal variation in American Red Cross blood donations, 1995 to 2005. Transfusion 48(8):1576-1583, 2008.

Hertzberg V, Ingall T, O'Fallon W, Asplund K, Goldfrank L, Louis T, Christianson T: Methods and processes for the reanalysis of the NINDS tissue plasminogen activator for acute ischemic stroke treatment trial. Clinical Trials 5(4):308-15, 2008.

Jennings JM, Louis TA, Ellen JM, Srikrishnan AK, Sivaram S, Mayer K, Solomon S, Kelly R, Celentano DD: Geographic prevalence and multilevel determination of community-level factors associated with herpes simplex virus type 2 infection in Chennai, India. American Journal of Epidemiology 167(12):1495-503, 2008.

Dember LM, Beck GJ, Allon M, Delmez JA, Dixon BS, Greenberg A, Himmelfarb J, Vazquez MA, Gassman JJ, Greene T, Radeva MK, Braden GL, Ikizler TA, Rocco MV, Davidson IJ, Kaufman JS, Meyers CM, Kusek JW, Feldman HI, Dialysis Access Consortium Study Group (includes Louis TA): Effect of clopidogrel on early failure of arteriovenous fistulas for hemodialysis: a randomized controlled trial. Journal of the American Medical Association 299(18):2164-71, 2008.

Bozzette SA, Ake CF, Tam HK, Phippard A, Cohen D, Scharfstein DO, Louis TA: Long-term survival and serious cardiovascular events in HIV-infected patients treated with highly active antiretroviral therapy. Journal of Acquired Immune Deficiency Syndromes 47(3):338-41, 2008.

O'Connor PJ, Rush WA, Davidson G, Louis TA, Solberg LI, Crain L, Johnson PE, Whitebird RR: Variation in quality of diabetes care at the levels of patient, physician, and clinic. Preventing Chronic Disease 5(1):A15, 2008.

Fryar CD, Hirsch R, Porter KS, Kottiri B, Brody DJ, Louis T: Drug use and sexual behaviors reported by adults: United States, 1999-2002. Advance Data (384):1-14, 2007.

Louis TA: Our future as history. Biometrics 63(1):1-9, 2007.

Thomas DC, Jerrett M, Kuenzli N, Louis TA, Dominici F, Zeger S, Schwarz J, Burnett RT, Krewski D, Bates D: Bayesian model averaging in time-series studies of air pollution and mortality. Journal of Toxicology and Environmental Health A 70(3-4):311-5, 2007.

Walsh A, Louis TA, Glass G: Detecting multiple levels of effect during survey sampling using a Bayesian approach: point prevalence estimates of a hantavirus in hispid cotton rats (Sigmodon hispidus). Ecological Modelling 205(1-2):29-38, 2007.

Collins AJ, Kasiske B, Herzog C, Chavers B, Foley R, Gilbertson D, Grimm R, Liu J, Louis T, Manning W, McBean M, Murray A, St Peter W, Xue J, Fan Q, Guo H, Li Q, Li S, Qiu Y, Li S, Roberts T, Skeans M, Snyder J, Solid C, Wang C, Weinhandl E, Zhang R, Arko C, Chen SC, Dalleska F, Daniels F, Dunning S, Ebben J, Frazier E, Hanzlik C, Johnson R, Sheets D, Wang X, Forrest B, Berrini D, Constantini E, Everson S, Eggers P, Agodoa L: Excerpts from the United States Renal Data System 2006 Annual Data Report. American Journal of Kidney Diseases 49(1 Suppl 1):A6-7, S1-296, 2007.

Lin R, Louis TA, Paddock SM, Ridgeway G: Loss function based ranking in two-stage, hierarchical models. Bayesian Analysis 1(4):915-946, 2006.

Roth MD, Connett JE, D'Armiento JM, Foronjy RF, Friedman PJ, Goldin JG, Louis TA, Mao JT, Muindi JR, O'Connor GT, Ramsdell JW, Ries AL, Scharf SM, Schluger NW, Sciurba FC, Skeans MA, Walter RE, Wendt CH, Wise RA, FORTE Study Investigators: Feasibility of retinoids for the treatment of emphysema study. Chest 130(5):1334-45, 2006.

DeMets DL, Stormo G, Boehnke M, Louis TA, Taylor J, Dixon D: Training of the next generation of biostatisticians: a call to action in the U.S. Statistics in Medicine 25(20):3415-29, 2006.

Paddock SM, Ridgeway G, Lin R, Louis TA: Flexible distributions for triple-goal estimates in two-stage hierarchical models. Computational Statistics and Data Analysis 50(11):3243-3262, 2006.

Marquis MS, Buntin MB, Escarce JJ, Kapur K, Louis TA, Yegian JM: Consumer decision making in the individual health insurance market. Health Affairs 25(3):w226-34, 2006.

Louis GB, Dukic V, Heagerty PJ, Louis TA, Lynch CD, Ryan LM, Schisterman EF, Trumble A, Pregnancy Modeling Working Group: Analysis of repeated pregnancy outcomes. Statistical Methods in Medical Research 15(2):103-26, 2006.

Marquis MS, Buntin MB, Escarce JJ, Kapur K, Louis TA: Is the individual market more than a bridge market? an analysis of disenrollment decisions. Inquiry 42(4):381-96, 2006.

Peng RD, Dominici F, Louis TA: Model choice in time series studies of air pollution and mortality. Journal of the Royal Statistical Society-A 169(2):179-203, 2006.

Aidan McDermott $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Cummings DA, Iamsirithaworn S, Lessler JT, McDermott A, Prasanthong R, Nisalak A, Jarman RG, Burke DS, Gibbons RV: The impact of the demographic transition on dengue in Thailand: insights from a statistical analysis and mathematical modeling. PLoS Medicine 6(9):e1000139, 2009.

Peng RD, Bell ML, Geyh AS, McDermott A, Zeger SL, Samet JM, Dominici F: Emergency admissions for cardiovascular and respiratory diseases and the chemical composition of fine particle air pollution. Environmental Health Perspectives 117(6):957-63, 2009.

Zeger SL, Dominici F, McDermott A, Samet JM: Mortality in the Medicare population and chronic exposure to fine particulate air pollution in urban centers (2000-2005). Environmental Health Perspectives 116(12):1614-9, 2008.

Peng RD, Chang HH, Bell ML, McDermott A, Zeger SL, Samet JM, Dominici F: Coarse particulate matter air pollution and hospital admissions for cardiovascular and respiratory diseases among Medicare patients. Journal of the American Medical Association 299(18):2172-9, 2008.

Eftim SE, Samet JM,

Janes H, McDermott A, Dominici F: Fine particulate matter and mortality: a comparison of the Six Cities and American Cancer Society cohorts with a Medicare cohort. Epidemiology 19(2):209-216, 2008.

Dominici F, Peng RD, Bell ML, Pham L, McDermott A, Zeger SL, Samet JM: Fine particulate air pollution and hospital admission for cardiovascular and respiratory diseases. Journal of the American Medical Association 295(10):1127-34, 2006.

John McGready $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Collaco JM, McGready J, Green DM, Naughton KM, Watson CP, Shields T, Bell SC, Wainwright CE; for the ACFBAL Study Group, Garry R. Cutting: Effect of temperature on cystic fibrosis lung disease and infections: a replicated cohort study. PLoS One 6(11):e27784, 2011.

Zablotsky Kufel JS, Resnick BA, Fox MA, McGready J, Yager JP, Burke TA: The impact of local environmental health capacity on foodborne illness morbidity in Maryland. American Journal of Public Health 101(8):1495-500, 2011.

Aggarwal R, Gupte N, Kass N, Taylor H, Ali J, Bhan A, Aggarwal A, Sisson SD, Kanchanaraksa S, McKenzie-White J, McGready J, Miotti P, Bollinger RC: A comparison of online versus on-site training in health research methodology: a randomized study. BMC Medical Education 11(1):37, 2011.

Stonemetz J, Pham JC, Necochea AJ, McGready J, Hody RE, Martinez EA: Reduction of regulated medical waste using lean sigma results in financial gains for hospital. Anesthesiology Clinics 29(1):145-52, 2011.

Collaco JM, Blackman SM, McGready J, Naughton KM, Cutting GR: Quantification of the relative contribution of environmental and genetic factors to variation in cystic fibrosis lung function. Journal of Pediatrics 157(5):802-7, 2010.

Cettomai D, Hiremath G, Ratchford J, Venkatesan A, Greenberg BM, McGready J, Pardo CA, Kerr DA, Frohman E, Balcer LJ, McArthur JC, Calabresi PA: Associations between retinal nerve fiber layer abnormalities and optic nerve examination. Neurology 75(15):1318-25, 2010.

Rosenberg RE, Law JK, Yenokyan G, McGready J, Kaufmann WE, Law PA: Characteristics and concordance of autism spectrum disorders among 277 twin pairs. Archives of Pediatrics and Adolescent Medicine 163(10):907-14, 2009.

Hoover-Fong JE, Schulze KJ, McGready J, Barnes H, Scott CI: Age-appropriate body mass index in children with achondroplasia: interpretation in relation to indexes of height. American Journal of Clinical Nutrition 88(2):364-71, 2008.

Hoover-Fong JE, McGready J, Schulze KJ, Barnes H, Scott CI: Weight for age charts for children with achondroplasia. American Journal of Medical Genetics A 143(19):2227-35, 2007.

Richman JM, Liu SS, Courpas G, Wong R, Rowlingson AJ, McGready J, Cohen SR, Wu CL: Does continuous peripheral nerve block provide superior pain control to opioids? a meta-analysis. Anesthesia and Analgesia 102(1):248-57, 2006.

Lucy Meoni $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Gross AL, Rebok GW, Ford DE, Chu AY, Gallo JJ, Liang KY, Meoni LA, Shihab HM, Wang NY, Klag MJ: Alcohol consumption and domain-specific cognitive function in older adults: longitudinal data from the Johns Hopkins Precursors Study. Journals of Gerontology, Series B 66(1):39-47, 2011.

Igo RP Jr, Iyengar SK, Nicholas SB, Goddard KA, Langefeld CD, Hanson RL, Duggirala R, Divers J, Abboud H, Adler SG, Arar NH, Horvath A, Elston RC, Bowden DW, Guo X, Ipp E, Kao WH, Kimmel PL, Knowler WC, Meoni LA, Molineros J, Nelson RG, Pahl MV, Parekh RS, Rasooly RS, Schelling JR, Shah VO, Smith MW, Winkler CA, Zager PG, Sedor JR, Freedman BI: Genomewide linkage scan for diabetic renal failure and albuminuria: the FIND Study. American Journal of Nephrology 33(5):381-389, 2011.

Engelman M, Agree EM, Meoni LA, Klag MJ: Propositional density and cognitive function in later life: findings from the Precursors Study. Journals of Gerontology Series B 65(6):706-11, 2010.

Chu AY, Meoni LA, Wang NY, Liang KY, Ford DE, Klag MJ: Reliability of alcohol recall after 15 years and 23 years of follow-up in the Johns Hopkins Precursors Study. Journal of Studies on Alcohol and Drugs 71(1):143-9, 2010.

Malhotra A, Igo RP Jr, Thameem F, Kao WH, Abboud HE, Adler SG, Arar NH, Bowden DW, Duggirala R, Freedman BI, Goddard KA, Ipp E, Iyengar SK, Kimmel PL, Knowler WC, Kohn O, Leehey D, Meoni LA, Nelson RG, Nicholas SB, Parekh RS, Rich SS, Chen YD, Saad MF, Scavini M, Schelling JR, Sedor JR, Shah VO, Taylor KD, Thornley-Brown D, Zager PG, Horvath A, Hanson RL, Family Investigation of Nephropathy and Diabetes Research Group (includes Meoni L): Genome-wide linkage scans for type 2 diabetes mellitus in four ethnically diverse populations-significant evidence for linkage on chromosome 4q in African Americans: the family investigation of nephropathy and diabetes research group. Diabetes/Metabolism Research and Reviews 25(8):740-7, 2009.

Cheng CY, Kao WH, Patterson N, Tandon A, Haiman CA, Harris TB, Xing C, John EM, Ambrosone CB, Brancati FL, Coresh J, Press MF, Parekh RS, Klag MJ, Meoni LA, Hsueh WC, Fejerman L, Pawlikowska L, Freedman ML, Jandorf LH, Bandera EV, Ciupak GL, Nalls MA, Akylbekova EL, Orwoll ES, Leak TS, Miljkovic I, Li R, Ursin G, Bernstein L, Ardlie K, Taylor HA, Boerwinckle E, Zmuda JM, Henderson BE, Wilson JG, Reich D: Admixture mapping of 15,280 African Americans identifies obesity susceptibility Loci on chromosomes 5 and X. PLoS Genetics 5(5):e1000490, 2009.

Wittink MN, Morales KH, Meoni LA, Ford DE, Wang NY, Klag MJ, Gallo JJ: Stability of preferences for end-of-life treatment after 3 years of follow-up: the Johns Hopkins Precursors Study. Archives of Internal Medicine 168(19):2125-30, 2008.

Kao WH, Klag MJ, Meoni LA, Reich D, Berthier-Schaad Y, Li M, Coresh J, Patterson N, Tandon A, Powe NR, Fink NE, Sadler JH, Weir MR, Abboud HE, Adler SG, Divers J, Iyengar SK, Freedman BI, Kimmel PL, Knowler WC, Kohn OF, Kramp K, Leehey DJ, Nicholas SB, Pahl MV, Schelling JR, Sedor JR, Thornley-Brown D, Winkler CA, Smith MW, Parekh RS, Family Investigation of Nephropathy and Diabetes Research Group: MYH9 is associated with nondiabetic end-stage renal disease in African Americans. Nature Genetics 40(10):1185-92, 2008.

Arar NH, Freedman BI, Adler SG, Iyengar SK, Chew EY, Davis MD, Satko SG, Bowden DW, Duggirala R, Elston RC, Guo X, Hanson RL, Igo RP Jr, Ipp E, Kimmel PL, Knowler WC, Molineros J, Nelson RG, Pahl MV, Quade SR, Rasooly RS, Rotter JI, Saad MF, Scavini M, Schelling JR, Sedor JR, Shah VO, Zager PG, Abboud HE, Family Investigation of Nephropathy and Diabetes Research Group (includes Meoni L): Heritability of the severity of diabetic retinopathy: the FIND-Eye study. Investigative Ophthalmology and Visual Science 49(9):3839-45, 2008.

Wang NY, Young JH, Meoni LA, Ford DE, Erlinger TP, Klag MJ: Blood pressure change and risk of hypertension associated with parental hypertension: The Johns Hopkins Precursors Study. Archives of Internal Medicine 168(6):643-8, 2008.

Parekh RS, Kao WH, Meoni LA, Ipp E, Kimmel PL, La Page J, Fondran C, Knowler WC, Klag MJ, Family Investigation of Nephropathy and Diabetes Research Group: Reliability of urinary albumin, total protein, and creatinine assays after prolonged storage: the Family Investigation of Nephropathy and Diabetes. Clinical Journal of the American Society of Nephrology 2(6):1156-62, 2007.

Iyengar SK, Abboud HE, Goddard KA, Saad MF, Adler SG, Arar NH, Bowden DW, Duggirala R, Elston RC, Hanson RL, Ipp E, Kao WH, Kimmel PL, Klag MJ, Knowler WC, Meoni LA, Nelson RG, Nicholas SB, Pahl MV, Parekh RS, Quade SR, Rich SS, Rotter JI, Scavini M, Schelling JR, Sedor JR, Sehgal AR, Shah VO, Smith MW, Taylor KD, Winkler CA, Zager PG, Freedman BI, Family Investigation of Nephropathy and Diabetes Research Group: Genome-wide scans for diabetic nephropathy and albuminuria in multiethnic populations: the family investigation of nephropathy and diabetes (FIND). Diabetes 56(6):1577-85, 2007.

Kittleson MM, Meoni LA, Wang NY, Chu AY, Ford DE, Klag MJ: Association of childhood socioeconomic status with subsequent coronary heart disease in physicians. Archives of Internal Medicine 166(21):2356-61, 2006.

Barone BB, Clark JM, Wang NY, Meoni LA, Klag MJ, Brancati FL: Lifetime weight patterns in male physicians: the effects of cohort and selective survival. Obesity 14(5):902-8, 2006.

John Muschelli $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Newell DW, Shah MM, Wilcox R, Hansmann DR, Melnychuk E, Muschelli J, Hanley DF: Minimally invasive evacuation of spontaneous intracerebral hemorrhage using sonothrombolysis. Journal of Neurosurgery 115(3):592-601, 2011.

Roger Peng $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Chang HH, Peng RD, Dominici F: Estimating the acute health effects of coarse particulate matter accounting for exposure measurement error. Biostatistics 12(4):637-52, 2011.

Peng RD: Reproducible research in computational science. Science 334(6060):1226-7, 2011.

Peng RD, Paigen B, Eggleston PA, Hagberg KA, Krevans M, Curtin-Brosnan J, Benson C, Shreffler WG, Matsui EC: Both the variability and level of mouse allergen exposure influence the phenotype of the immune response in workers at a mouse facility. Journal of Allergy and Clinical Immunology 128(2):390-396, 2011.

Bell ML, Ebisu K, Peng RD: Community-level spatial heterogeneity of chemical constituent levels of fine particulates and implications for epidemiological research. Journal of Exposure Science and Environmental Epidemiology 21(4):372-84, 2011.

Hansel NN, Matsui EC, Rusher R, McCormack MC, Curtin-Brosnan J, Peng RD, Mazique D, Breysse PN, Diette GB: Predicting future asthma morbidity in preschool inner-city children.Journal of Asthma 48(8):797-803, 2011.

Keet CA, McCormack MC, Peng RD, Matsui EC: Age- and atopy-dependent effects of vitamin D on wheeze and asthma. Journal of Allergy and Clinical Immunology 128(2):414-416, 2011.

Peng RD, Bobb JF, Tebaldi C, McDaniel L, Bell ML, Dominici F: Toward a quantitative estimate of future heat wave mortality under global climate change. Environmental Health Perspectives 119(5):701-6, 2011.

McCormack MC, Breysse PN, Matsui EC, Hansel NN, Peng RD, Curtin-Brosnan J, Williams DL, Wills-Karp M, Diette GB, Center for Childhood Asthma in the Urban Environment: Indoor particulate matter increases asthma morbidity in children with non-atopic and atopic asthma. Annals of Allergy Asthma & Immunology 106(4):308-15, 2011.

Peng RD, Bell ML: Spatial misalignment in time series studies of air pollution and health data. Biostatistics 11(4):720-40, 2010.

Tankersley CG, Peng RD, Bedga D, Gabrielson K, Champion HC: Variation in echocardiographic and cardiac hemodynamic effects of PM and ozone inhalation exposure in strains related to Nppa and Npr1 gene knock-out mice. Inhalation Toxicology 22(8):695-707, 2010.

Dominici F, Peng RD, Barr CD, Bell ML: Protecting human health from air pollution: shifting from a single-pollutant to a multipollutant approach. Epidemiology 21(2):187-94, 2010.

Katsouyanni K, Samet JM, Anderson HR, Atkinson R, Le Tertre A, Medina S, Samoli E, Touloumi G, Burnett RT, Krewski D, Ramsay T, Dominici F, Peng RD, Schwartz J, Zanobetti A, HEI Health Review Committee: Air pollution and health: a European and North American approach (APHENA). Research Report (Health Effects Institute) 142:5-90, 2009.

Bell ML, Peng RD, Dominici F, Samet JM: Emergency hospital admissions for cardiovascular diseases and ambient levels of carbon monoxide: results for 126 United States urban counties, 1999-2005. Circulation 120(11):949-55, 2009.

Bell ML, Ebisu K, Peng RD, Dominici F: Adverse health effects of particulate air pollution: modification by air conditioning. Epidemiology 20(5):682-6, 2009.

Peng RD, Bell ML, Geyh AS, McDermott A, Zeger SL, Samet JM, Dominici F: Emergency admissions for cardiovascular and respiratory diseases and the chemical composition of fine particle air pollution. Environmental Health Perspectives 117(6):957-63, 2009.

Bell ML, Ebisu K, Peng RD, Samet JM, Dominici F: Hospital admissions and chemical composition of fine particle air pollution. American Journal of Respiratory and Critical Care Medicine 179(12):1115-20, 2009.

Peng RD: Reproducible research and Biostatistics. Biostatistics 10(3):405-8, 2009.

Welty LJ, Peng RD, Zeger SL, Dominici F: Bayesian distributed lag models: estimating effects of particulate matter air pollution on daily mortality. Biometrics 65(1):282-91, 2009.

Eckel SP, Peng RD: Interacting with local and remote data repositories using the stashR package. Computational Statistics 24(2):247-254, 2009.

Peng RD, Dominici F, Welty LJ: Bayesian hierarchical distributed lag model for estimating the time course of risk of hospitalization associated with particulate matter air pollution. Applied Statistics 58(1):3-24, 2008.

Samoli E, Peng R, Ramsay T, Pipikou M, Touloumi G, Dominici F, Burnett R, Cohen A, Krewski D, Samet J, Katsouyanni K: Acute effects of ambient particulate matter on mortality in Europe and North America: results from the APHENA study. Environmental Health Perspectives 116(11):1480-6, 2008.

Bell ML, Ebisu K, Peng RD, Walker J, Samet JM, Zeger SL, Dominici F: Seasonal and regional short-term effects of fine particles on hospital admissions in 202 US counties, 1999-2005. American Journal of Epidemiology 168(11):1301-10, 2008.

Peng RD, Chang HH, Bell ML, McDermott A, Zeger SL, Samet JM, Dominici F: Coarse particulate matter air pollution and hospital admissions for cardiovascular and respiratory diseases among Medicare patients. Journal of the American Medical Association 299(18):2172-9, 2008.

Dominici F, Peng RD, Ebisu K, Zeger SL, Samet JM, Bell ML: Does the effect of PM(10) on mortality depend on PM nickel and vanadium content? a reanalysis of the NMMAPS data. Environmental Health Perspectives 115(12):1701-3, 2007.

Dominici F, Peng RD, Zeger SL, White RH, Samet JM: Particulate air pollution and mortality in the United States: did the risks change from 1987 to 2000? American Journal of Epidemiology 166(8):880-8, 2007.

Peng RD: Interacting with data using the filehash package. R News 6(4):19-24, 2006.

Peng RD, Dominici F, Zeger SL: Reproducible epidemiologic research. American Journal of Epidemiology 163(9):783-9, 2006.

Bell ML, Peng RD, Dominici F: The exposure-response curve for ozone and risk of mortality and the adequacy of current ozone regulations. Environmental Health Perspectives 114(4):532-6, 2006.

Zeger SL, Irizarry R, Peng RD: On time series analysis of public health and biomedical data. Annual Review of Public Health 27:57-79, 2006.

Dominici F, Peng RD, Bell ML, Pham L, McDermott A, Zeger SL, Samet JM: Fine particulate air pollution and hospital admission for cardiovascular and respiratory diseases. Journal of the American Medical Association 295(10):1127-34, 2006.

Peng RD, Dominici F, Louis TA: Model choice in time series studies of air pollution and mortality. Journal of the Royal Statistical Society-A 169(2):179-203, 2006.

Charles Rohde $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Shapiro JR, Bibat G, Hiremath G, Blue ME, Hundalani S, Yablonski T, Kantipuly A, Rohde C, Johnston M, Naidu S: Bone mass in Rett syndrome: association with clinical parameters and MECP2 mutations. Pediatric Research 68(5):446-51, 2010.

Strug LJ, Hodge SE, Chiang T, Pal DK, Corey PN, Rohde C: A pure likelihood approach to the analysis of genetic association data: an alternative to Bayesian and frequentist analysis. European Journal of Human Genetics 18(8):933-41, 2010.

Vyas A, Li Z, Aspalter M, Feiner J, Hoke A, Zhou C, O'Daly A, Abdullah M, Rohde C, Brushart TM: An in vitro model of adult mammalian nerve repair. Experimental Neurology 223(1):112-8, 2010.

Choi L, Caffo B, Rohde C: A survey of the likelihood approach to bioequivalence trials. Statistics in Medicine 27(24):4874-4894, 2008.

Theppeang K, Glass TA, Bandeen-Roche K, Todd AC, Rohde CA, Links JM, Schwartz BS: Associations of bone mineral density and lead levels in blood, tibia, and patella in urban-dwelling women. Environmental Health Perspectives 116(6):784-90, 2008.

Theppeang K, Glass TA, Bandeen-Roche K, Todd AC, Rohde CA, Schwartz BS: Gender and race/ethnicity differences in lead dose biomarkers. American Journal of Public Health 98(7):1248-55, 2008.

Dosreis S, Johnson E, Steinwachs D, Rohde C, Skinner EA, Fahey M, Lehman AF: Antipsychotic treatment patterns and hospitalizations among adults with schizophrenia. Schizophrenia Research 101(1-3):304-11, 2008.

Choi L, Caffo B, Rohde C, Ndovi TT, Hendrix CW: A mechanistic latent variable model for estimating drug concentrations in the male genital tract: A case study in drug kinetics. Statistics in Medicine 27(14):2697-2714, 2007.

Choi L, Caffo B, Rohde C: Optimal sampling times in bioequivalence studies using a simulated annealing algorithm. Statistics and Computing 17(4):337-347, 2007.

Caffo B, An MW, Rohde C: Flexible random intercept models for binary outcomes using mixtures of normals. Computational Statistics & Data Analysis 51(11):5220-5235, 2007.

Strug L, Rohde CA, Corey PN: An introduction to evidential sample size calculations. The American Statistician 61(3):207-212, 2007.

Caldera D, Burrell L, Rodriguez K, Crowne SS, Rohde C, Duggan A: Impact of a statewide home visiting program on parenting and on child health and development. Child Abuse & Neglect 31(8):829-52, 2007.

Duggan A, Caldera D, Rodriguez K, Burrell L, Rohde C, Crowne SS: Impact of a statewide home visiting program to prevent child abuse. Child Abuse & Neglect 31(8):801-27, 2007.

Ndovi TT, Parsons T, Choi L, Caffo B, Rohde C, Hendrix CW: A new method to estimate quantitatively seminal vesicle and prostate gland contributions to ejaculate. British Journal of Clinical Pharmacology 63(4):404-420, 2007.

Wong DF, Kuwabara H, Schretlen DJ, Bonson KR, Zhou Y, Nandi A, Brasic JR, Kimes AS, Maris MA, Kumar A, Contoreggi C, Links J, Ernst M, Rousset O, Zukin S, Grace AA, Rohde C, Jasinski DR, Gjedde A, London ED: Increased occupancy of dopamine receptors in human striatum during cue-elicited cocaine craving. Neuropsychopharmacology 31(12):2716-2727, 2006.

Guilarte TR, Chen MK, McGlothan JL, Verina T, Wong DF, Zhou Y, Alexander M, Rohde CA, Syversen T, Decamp E, Koser AJ, Fritz S, Gonczi H, Anderson DW, Schneider JS: Nigrostriatal dopamine system dysfunction and subtle motor deficits in manganese-exposed non-human primates. Experimental Neurology 202(2):381-90, 2006.

Ndovi TT, Choi L, Caffo B, Parsons T, Baker S, Zhao M, Rohde C, Hendrix CW: Quantitative assessment of seminal vesicle and prostate drug concentrations by use of a noninvasive method. Clinical Pharmacology and Therapeutics 80(2):146-58, 2006.

Forrest CB, Nutting PA, von Schrader S, Rohde C, Starfield B: Primary care physician specialty referral decision making: patient, physician, and health care system determinants. Medical Decision Making 26(1):76-85, 2006.

Michael Rosenblum $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Rosenblum M, van der Laan MJ: Optimizing randomized trial designs to distinguish which subpopulations benefit from treatment. Biometrika 98 (4): 845-860, 2011.

Shiboski S, Rosenblum M, Jewell NP: The impact of secondary condom interventions on the interpretation of results from HIV prevention trials. Statistical Communications in Infectious Diseases 2(1):Article 2, 2010.

Rosenblum M, van der Laan MJ: Simple, efficient estimators of treatment effects in randomized trials using generalized linear models to leverage baseline variables. International Journal of Biostatistics 6(1):Article 13, 2010.

Rosenblum M, van der Laan MJ: Targeted maximum likelihood estimation of the parameter of a marginal structural model. International Journal of Biostatistics 6(2):Article 19, 2010.

Rosenblum M, van der Laan MJ: Using regression models to analyze randomized trials: asymptotically valid hypothesis tests despite incorrectly specified models. Biometrics 65(3):937-45, 2009.

Rosenblum M, Deeks SG, van der Laan M, Bangsberg DR: The risk of virologic failure decreases with duration of HIV suppression, at greater than 50% adherence to antiretroviral therapy. PLoS One 4(9):e7196, 2009.

Rosenblum M, Jewell NP, van der Laan MJ, Shiboski S, van der Straten A, Padian N: Analyzing direct effects in randomized trials with secondary interventions: an application to HIV prevention trials. Journal of the Royal Statistical Society A 172(2):443-465, 2009.

Rosenblum M, van der Laan MJ: Confidence intervals for the population mean tailored to small sample sizes, with applications to survey sampling. International Journal of Biostatistics 5(1):Article 4, 2009.

Padian N, van der Straten A, Ramjee G, Chipato T, de Bruyn D, Blanchard K, Shiboski S, Montgomery E, Fancher H, Cheng H, Rosenblum M, van der Laan M, Jewell N, McIntyre J, The MIRA Team: Diaphragm and lubricant gel for prevention of HIV acquisition in southern African women: a randomised controlled trial. Lancet 370(9583):251-261, 2007.

Ingo Ruczinski $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Beaty TH, Ruczinski I, Murray JC, Marazita ML, Munger RG, Hetmanski JB, Murray T, Redett RJ, Fallin MD, Liang KY, Wu T, Patel PJ, Jin SC, Zhang TX, Schwender H, Wu-Chou YH, Chen PK, Chong SS, Cheah F, Yeow V, Ye X, Wang H, Huang S, Jabs EW, Shi B, Wilcox AJ, Lie RT, Jee SH, Christensen K, Doheny KF, Pugh EW, Ling H, Scott AF: Evidence for gene-environment interaction in a genome wide study of nonsyndromic cleft palate. Genetic Epidemiology 35(6):469-78, 2011.

Wegmann D, Kessner DE, Veeramah KR, Mathias RA, Nicolae DL, Yanek LR, Sun YV, Torgerson DG, Rafaels N, Mosley T, Becker LC, Ruczinski I, Beaty TH, Kardia SL, Meyers DA, Barnes KC, Becker DM, Freimer NB, Novembre J: Recombination rates in admixed individuals identified by ancestry-based inference. Nature Genetics 43(9):847-53, 2011.

Torgerson DG, Ampleford EJ, ..., Ruczinski I, et al: Meta-analysis of genome-wide association studies of asthma in ethnically diverse North American populations. Nature Genetics 43(9):887-92, 2011.

Bhatia G, Patterson N, Pasaniuc B, Zaitlen N, Genovese G, Pollack S, Mallick S, Myers S, Tandon A, Spencer C, Palmer CD, Adeyemo AA, Akylbekova EL, Cupples LA, Divers J, Fornage M, Kao WH, Lange L, Li M, Musani S, Mychaleckyj JC, Ogunniyi A, Papanicolaou G, Rotimi CN, Rotter JI, Ruczinski I, Salako B, Siscovick DS, Tayo BO, Yang Q, McCarroll S, Sabeti P, Lettre G, De Jager P, Hirschhorn J, Zhu X, Cooper R, Reich D, Wilson JG, Price AL: : Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection. American Journal of Human Genetics 89(3):368-81, 2011.

Mathias RA, Sergeant S, Ruczinski I, Torgerson DG, Hugenschmidt CE, Kubala M, Vaidya D, Suktitipat B, Ziegler JT, Ivester P, Case D, Yanek LR, Freedman BI, Rudock ME, Barnes KC, Langefeld CD, Becker LC, Bowden DW, Becker DM, Chilton FH: The impact of FADS genetic variants on ω6 polyunsaturated fatty acid metabolism in African America. BMC Genetics 12:50, 2011.

Pasaniuc B, Zaitlen N, Lettre G, Chen GK, Tandon A, Kao WH, Ruczinski I, Fornage M, Siscovick DS, Zhu X, Larkin E, Lange LA, Cupples LA, Yang Q, Akylbekova EL, Musani SK, Divers J, Mychaleckyj J, Li M, Papanicolaou GJ, Millikan RC, Ambrosone CB, John EM, Bernstein L, Zheng W, Hu JJ, Ziegler RG, Nyante SJ, Bandera EV, Ingles SA, Press MF, Chanock SJ, Deming SL, Rodriguez-Gil JL, Palmer CD, Buxbaum S, Ekunwe L, Hirschhorn JN, Henderson BE, Myers S, Haiman CA, Reich D, Patterson N, Wilson JG, Price AL: Enhanced statistical tests for GWAS in admixed populations: assessment using African Americans from CARe and a breast cancer consortium. PLoS Genetics 7(4):e1001371, 2011.

Kral BG, Mathias RA, Suktitipat B, Ruczinski I, Vaidya D, Yanek LR, Quyyumi AA, Patel RS, Zafari AM, Vaccarino V, Hauser ER, Kraus WE, Becker LC, Becker DM: A common variant in the CDKN2B gene on chromosome 9p21 protects against coronary artery disease in Americans of African ancestry. Journal of Human Genetics 56(3):224-9, 2011.

Halper-Stromberg E, Frelin L, Ruczinski I, Scharpf R, Jie C, Carvalho B, Hao H, Hetrick K, Jedlicka A, Dziedzic A, Doheny K, Scott AF, Baylin S, Pevsner J, Spencer F, Irizarry RA: Performance assessment of copy number microarray platforms using a spike-in experiment. Bioinformatics 27(8):1052-1060, 2011.

Schwender H, Bowers K, Fallin MD, Ruczinski I: Importance measures for epistatic interactions in case-parent trios. Annals of Human Genetics 75(1):122-32, 2011.

Schwender H, Ruczinski I, Ickstadt K: Testing SNPs and sets of SNPs for importance in association studies. Biostatistics 12(1):18-32, 2011.

Scharpf RB, Ruczinski I, Carvalho B, Doan B, Chakravarti A, Irizarry RA: A multilevel model to address batch effects in copy number estimation using SNP arrays. Biostatistics 12(1):33-50, 2011.

Lam TK, Ruczinski I, Helzlsouer KJ, Shugart YY, Caulfield LE, Alberg AJ: Cruciferous vegetable intake and lung cancer risk: a nested case-control study matched on cigarette smoking. Cancer Epidemiology, Biomarkers & Prevention 19(10):2534-40, 2010.

Hunninghake GM, Soto-Quiros ME, Avila L, Kim HP, Lasky-Su J, Rafaels N, Ruczinski I, Beaty TH, Mathias RA, Barnes KC, Wilk JB, O'Connor GT, Gauderman WJ, Vora H, Baurley JW, Gilliland F, Liang C, Sylvia JS, Klanderman BJ, Sharma SS, Himes BE, Bossley CJ, Israel E, Raby BA, Bush A, Choi AM, Weiss ST, Celedon JC: TSLP polymorphisms are associated with asthma in a sex-specific fashion. Allergy 65(12):1566-75, 2010.

Assimes TL, Holm H, Kathiresan S, Reilly MP, Thorleifsson G, Voight BF, Erdmann J, Willenborg C, Vaidya D, Xie C, Patterson CC, Morgan TM, Burnett MS, Li M, Hlatky MA, Knowles JW, Thompson JR, Absher D, Iribarren C, Go A, Fortmann SP, Sidney S, Risch N, Tang H, Myers RM, Berger K, Stoll M, Shah SH, Thorgeirsson G, Andersen K, Havulinna AS, Herrera JE, Faraday N, Kim Y, Kral BG, Mathias RA, Ruczinski I, et al: Lack of association between the Trp719Arg polymorphism in kinesin-like protein-6 and coronary artery disease in 19 case-control studies. Journal of the American College of Cardiology 56(19):1552-63, 2010.

Scharpf RB, Iacobuzio-Donahue CA, Cope L, Ruczinski I, Garrett-Mayer E, Lakkur S, Campagna D, Parmigiani G: Cross-platform comparison of two pancreatic cancer phenotypes. Cancer Informatics 9:257-264, 2010.

Kottgen A, Glazer NL, Dehghan A, Hwang SJ, Katz R, Li M, Yang Q, Gudnason V, Launer LJ, Harris TB, Smith AV, Arking DE, Astor BC, Boerwinkle E, Ehret GB, Ruczinski I, Scharpf RB, Chen YD, de Boer IH, Haritunians T, Lumley T, Sarnak M, Siscovick D, Benjamin EJ, Levy D, Upadhyay A, Aulchenko YS, Hofman A, Rivadeneira F, Uitterlinden AG, van Duijn CM, Chasman DI, Pare G, Ridker PM, Kao WH, Witteman JC, Coresh J, Shlipak MG, Fox CS: Multiple loci associated with indices of renal function and chronic kidney disease. Nature Genetics 41(6):712-7, 2009.

Schwender H, Ruczinski I: Logic regression and its extensions. Advances in Genetics 72:25-45, 2010.

Wu T, Liang KY, Hetmanski JB, Ruczinski I, Fallin MD, Ingersoll RG, Wang H, Huang S, Ye X, Wu-Chou YH, Chen PK, Jabs EW, Shi B, Redett R, Scott AF, Beaty TH: Evidence of gene-environment interaction for the IRF6 gene and maternal multivitamin supplementation in controlling the risk of cleft lip with/without cleft palate. Human Genetics 128(4):401-10, 2010.

Murray T, Beaty TH, Mathias RA, Rafaels N, Grant AV, Faruque MU, Watson HR, Ruczinski I, Dunston GM, Barnes KC: African and non-African admixture components in African Americans and an African Caribbean population. Genetic Epidemiology 34(6):561-8, 2010.

Li Q, Fallin MD, Louis TA, Lasseter VK, McGrath JA, Avramopoulos D, Wolyniec PS, Valle D, Liang KY, Pulver AE, Ruczinski I: Detection of SNP-SNP interactions in trios of parents with schizophrenic children. Genetic Epidemiology 34(5):396-406, 2010.

Mathias RA, Kim Y, Sung H, Yanek LR, Mantese VJ, Hererra-Galeano E, Ruczinski I, Wilson AF, Faraday N, Becker LC, Becker DM: A combined genome-wide linkage and association approach to find susceptibility loci for platelet function phenotypes in European American and African American families with coronary artery disease. BMC Medical Genomics 3(1):22, 2010.

Beaty TH, Murray JC, Marazita ML, Munger RG, Ruczinski I, Hetmanski JB, Liang KY, Wu T, Murray T, Fallin MD, Redett RA, Raymond G, Schwender H, Jin SC, Cooper ME, Dunnwald M, Mansilla MA, Leslie E, Bullard S, Lidral AC, Moreno LM, Menezes R, Vieira AR, Petrin A, Wilcox AJ, Lie RT, Jabs EW, Wu-Chou YH, Chen PK, Wang H, Ye X, Huang S, Yeow V, Chong SS, Jee SH, Shi B, Christensen K, Melbye M, Doheny KF, Pugh EW, Ling H, Castilla EE, Czeizel AE, Ma L, Field LL, Brody L, Pangilinan F, Mills JL, Molloy AM, Kirke PN, Scott JM, Arcos-Burgos M, Scott AF: A genome-wide association study of cleft lip with and without cleft palate identifies risk variants near MAFB and ABCA4. Nature Genetics 42(6):525-9, 2010.

Mathias RA, Grant AV, Rafaels N, Hand T, Gao L, Vergara C, Tsai YJ, Yang M, Campbell M, Foster C, Gao P, Togias A, Hansel NN, Diette G, Adkinson NF, Liu MC, Faruque M, Dunston GM, Watson HR, Bracken MB, Hoh J, Maul P, Maul T, Jedlicka AE, Murray T, Hetmanski JB, Ashworth R, Ongaco CM, Hetrick KN, Doheny KF, Pugh EW, Rotimi CN, Ford J, Eng C, Burchard EG, Sleiman PM, Hakonarson H, Forno E, Raby BA, Weiss ST, Scott AF, Kabesch M, Liang L, Abecasis G, Moffatt MF, Cookson WO, Ruczinski I, Beaty TH, Barnes KC: A genome-wide association study on African-ancestry populations for asthma. Journal of Allergy and Clinical Immunology 125(2):336-346, 2010.

Louis TA, Ruczinski I: Efficient evaluation of ranking procedures when the number of units is large, with application to SNP identification. Biometrical Journal 52(1):34-49, 2010.

Sleiman PM, Flory J, Imielinski M, Bradfield JP, Annaiah K, Willis-Owen SA, Wang K, Rafaels NM, Michel S, Bonnelykke K, Zhang H, Kim CE, Frackelton EC, Glessner JT, Hou C, Otieno FG, Santa E, Thomas K, Smith RM, Glaberson WR, Garris M, Chiavacci RM, Beaty TH, Ruczinski I, Orange JM, Allen J, Spergel JM, Grundmeier R, Mathias RA, Christie JD, von Mutius E, Cookson WO, Kabesch M, Moffatt MF, Grunstein MM, Barnes KC, Devoto M, Magnusson M, Li H, Grant SF, Bisgaard H, Hakonarson H: Variants of DENND1B associated with asthma in children. New England Journal of Medicine 362(1):36-44, 2010.

Scharpf RB, Ruczinski I: R classes and methods for SNP array data. Methods in Molecular Biology 593:67-79, 2010.

Wheless L, Ruczinski I, Alani RM, Clipp S, Hoffman-Bolton J, Jorgensen TJ, Liegeois NJ, Strickland PT, Alberg AJ: The association between skin characteristics and skin cancer prevention behaviors. Cancer Epidemiology, Biomarkers and Prevention 18(10):2613-9, 2009.

Miller CL, Murakami P, Ruczinski I, Ross RG, Sinkus M, Sullivan B, Leonard S: Two complex genotypes relevant to the kynurenine pathway and melanotropin function show association with schizophrenia and bipolar disorder. Schizophrenia Research 113(2-3):259-67, 2009.

Jorgensen TJ, Ruczinski I, Kessing B, Smith MW, Shugart YY, Alberg AJ: Hypothesis-driven candidate gene association studies: practical design and analytical considerations. American Journal of Epidemiology 170(8):986-93, 2009.

Gallicchio L, Chang HH, Christo DK, Thuita L, Huang HY, Strickland P, Ruczinski I, Clipp S, Helzlsouer KJ: Single nucleotide polymorphisms in obesity-related genes and all-cause and cause-specific mortality: a prospective cohort study. BMC Medical Genetics 10(1):103, 2009.

Price AL, Tandon A, Patterson N, Barnes KC, Rafaels N, Ruczinski I, Beaty TH, Mathias R, Reich D, Myers S: Sensitive detection of chromosomal segments of distinct ancestry in admixed populations. PLoS Genetics 5(6):e1000519, 2009.

Himes BE, Hunninghake GM, Baurley JW, Rafaels NM, Sleiman P, Strachan DP, Wilk JB, Willis-Owen SA, Klanderman B, Lasky-Su J, Lazarus R, Murphy AJ, Soto-Quiros ME, Avila L, Beaty T, Mathias RA, Ruczinski I, Barnes KC, Celedon JC, Cookson WO, Gauderman WJ, Gilliland FD, Hakonarson H, Lange C, Moffatt MF, O'Connor GT, Raby BA, Silverman EK, Weiss ST: Genome-wide association analysis identifies PDE4D as an asthma-susceptibility gene. American Journal of Human Genetics 84(5):581-93, 2009.

Lam TK, Ruczinski I, Helzlsouer K, Shugart YY, Li KE, Clipp S, Strickland PT, Alberg AJ: Copy number variants of GSTM1 and GSTT1 in relation to lung cancer risk in a prospective cohort study. Annals of Epidemiology 19(8):546-52, 2009.

Ruczinski I, Plaxco KW: Some recommendations for the practitioner to improve the precision of experimentally determined protein folding rates and phi values. Proteins 74(2):461-74, 2009.

Schulze KJ, Christian P, Ruczinski I, Ray AL, Nath A, Wu LS, Semba RD: Hepcidin and iron status among pregnant women in Bangladesh. Asia Pacific Journal of Clinical Nutrition 17(3):451-6, 2008.

Pattaro C, Ruczinski I, Fallin DM, Parmigiani G: Haplotype block partitioning as a tool for dimensionality reduction in SNP association studies. BMC Genomics 9(1):405, 2008.

Chen J, Ruczinski I, Jorgensen TJ, Yenokyan G, Yao Y, Alani R, Liegeois NJ, Hoffman SC, Hoffman-Bolton J, Strickland PT, Helzlsouer KJ, Alberg AJ: Nonmelanoma skin cancer and risk for subsequent malignancy. Journal of the National Cancer Institute 100(17):1215-22, 2008.

Sull JW, Liang KY, Hetmanski JB, Fallin MD, Ingersoll RG, Park J, Wu-Chou YH, Chen PK, Chong SS, Cheah F, Yeow V, Park BY, Jee SH, Jabs EW, Redett R, Jung E, Ruczinski I, Scott AF, Beaty TH: Differential parental transmission of markers in RUNX2 among cleft case-parent trios from four populations. Genetic Epidemiology 32(6):505-12, 2008.

Scharpf RB, Parmigiani G, Pevsner J, Ruczinski I: Hidden Markov models for the assessment of chromosomal alterations using high-throughput SNP arrays. Annals of Applied Statistics 2(2):687-713, 2008.

Gallicchio L, Chang H, Christo DK, Thuita L, Huang HY, Strickland P, Ruczinski I, Hoffman SC, Helzlsouer KJ: Single nucleotide polymorphisms in inflammation-related genes and mortality in a community-based cohort in Washington County, Maryland. American Journal of Epidemiology 167(7):807-13, 2008.

Ting JC, Roberson ED, Miller ND, Lysholm-Bernacchi A, Stephan DA, Capone GT, Ruczinski I, Thomas GH, Pevsner J: Visualization of uniparental inheritance, Mendelian inconsistencies, deletions, and parent of origin effects in single nucleotide polymorphism trio data with SNPtrio. Human Mutation 28(12):1225-35, 2007.

Jorgensen TJ, Visvanathan K, Ruczinski I, Thuita L, Hoffman S, Helzlsouer KJ: Breast cancer risk is not associated with polymorphic forms of xeroderma pigmentosum genes in a cohort of women from Washington County, Maryland. Breast Cancer Research and Treatment 101(1):65-71, 2007.

Visvanathan K, Crum RM, Strickland PT, You X, Ruczinski I, Berndt SI, Alberg AJ, Hoffman SC, Comstock GW, Bell DA, Helzlsouer KJ: Alcohol dehydrogenase genetic polymorphisms, low-to-moderate alcohol consumption, and risk of breast cancer. Alcoholism, Clinical and Experimental Research 31(3):467-76, 2007.

Scharpf RB, Ting JC, Pevsner J, Ruczinski I: SNPchip: R classes and methods for SNP array data. Bioinformatics 23(5):627-8, 2007.

Ruczinski I, Sosnick TR, Plaxco KW: Methods for the accurate estimation of confidence intervals on protein folding phi-values. Protein Science 15(10):2257-64, 2006.

Dai JY, Ruczinski I, LeBlanc M, Kooperberg C: Imputation methods to improve inference in SNP association studies. Genetic Epidemiology 30(8):690-702, 2006.

Brown EE, Fallin D, Ruczinski I, Hutchinson A, Staats B, Vitale F, Lauria C, Serraino D, Rezza G, Mbisa G, Whitby D, Messina A, Goedert JJ, Chanock SJ: Associations of classic Kaposi sarcoma with common variants in genes that modulate host immunity. Cancer Epidemiology, Biomarkers and Prevention 15(5):926-34, 2006.

De Los Rios MA, Muralidhara BK, Wildes D, Sosnick TR, Marqusee S, Wittung-Stafshede P, Plaxco KW, Ruczinski I: On the precision of experimentally determined protein folding rates and {phi}-values. Protein Science 15(3):553-63, 2006.

Ting JC, Ye Y, Thomas GH, Ruczinski I, Pevsner J: Analysis and visualization of chromosomal abnormalities in SNP data with SNPscan. BMC Bioinformatics 7(1):25, 2006.

Mao R, Wang X, Spitznagel EL Jr, Frelin LP, Ting JC, Ding H, Kim JW, Ruczinski I, Downey TJ, Pevsner J: Primary and secondary transcriptional effects in the developing human Down syndrome brain and heart. Genome Biology 6(13):R107, 2006.

Daniel Scharfstein $Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Scharfstein D, Onicescu G, Goodman S, Whitaker R: Analysis of subgroup effects in randomized trials when subgroup membership is missing: application to the second Multicenter Automatic Defibrillator Intervention Trial. Applied Statistics 60(4):607-617, 2011.

Wang W, Scharfstein D, Wang C, Daniels M, Needham D, Brower R, the NHLBI ARDS Clinical Network: Estimating the causal effect of low tidal volume ventilation on survival in patients with acute lung injury. Applied Statistics 60(4):475-496, 2011.

Bobb JF, Scharfstein DO, Daniels MJ, Collins FS, Kelada S: Multiple imputation of missing phenotype data for QTL mapping. Statistical Applications in Genetics and Molecular Biology 10(1): Article 29, 2011.

Boult C, Reider L, Leff B, Frick KD, Boyd CM, Wolff JL, Frey K, Karm L, Wegener ST, Mroz T, Scharfstein DO: The effect of guided care teams on the use of health services: results from a cluster-randomized controlled trial. Archives of Internal Medicine 171(5):460-6, 2011.

Skolasky RL, Green AF, Scharfstein D, Boult C, Reider L, Wegener ST: Psychometric properties of the patient activation measure among multimorbid older adults. Health Services Research 46(2):457-78, 2011.

Reshef S, Fried L, Beauchamp N, Scharfstein D, Reshef D, Goodman S: Diastolic blood pressure levels and ischemic stroke incidence in older adults with white matter lesions. Journals of Gerontology Series A 66(1):74-81, 2011.

Wang C, Daniels MJ, Scharfstein DO, Land S: A Bayesian shrinkage model for incomplete longitudinal binary data with application to the breast cancer prevention trial. Journal of the American Statistical Association 105(492):1333-1346, 2010.

Wolff JL, Giovannetti ER, Boyd CM, Reider L, Palmer S, Scharfstein D, Marsteller J, Wegener ST, Frey K, Leff B, Frick KD, Boult C: Effects of guided care on family caregivers. Gerontologist 50(4):459-70, 2010.

Marsteller JA, Hsu YJ, Reider L, Frey K, Wolff J, Boyd C, Leff B, Karm L, Scharfstein D, Boult C: Physician satisfaction with chronic care processes: a cluster-randomized trial of guided care. Annals of Family Medicine 8(4):308-15, 2010.

MacKenzie EJ, Weir S, Rivara FP, Jurkovich GJ, Nathens AB, Wang W, Scharfstein DO, Salkever DS: The value of trauma center care. Journal of Trauma 69(1):1-10, 2010.

Varadhan R, Weiss CO, Segal JB, Wu AW, Scharfstein D, Boyd C: Evaluating health outcomes in the presence of competing risks: a review of statistical methods and clinical applications. Medical Care 48(6 Suppl):S96-105, 2010.

Boyd CM, Reider L, Frey K, Scharfstein D, Leff B, Wolff J, Groves C, Karm L, Wegener S, Marsteller J, Boult C: The effects of guided care on the perceived quality of health care for multi-morbid older persons: 18-month outcomes from a cluster-randomized controlled trial. Journal of General Internal Medicine 25(3):235-42, 2010.

Wang W, Scharfstein D, Tan Z,

MacKenzie EJ: Causal inference in outcome-dependent two-phase sampling designs. Journal of the Royal Statistical Society-B 71(5):947-969, 2009.

Rodger AJ, Fox Z, Lundgren JD, Kuller LH, Boesecke C, Gey D, Skoutelis A, Goetz MB, Phillips AN, INSIGHT Strategies for Management of Antiretroviral Therapy (SMART) Study Group (includes

Scharfstein D): Activation and coagulation biomarkers are independent predictors of the development of opportunistic disease in patients with HIV infection. Journal of Infectious Diseases 200(6):973-83, 2009.

Leff B, Reider L, Frick KD, Scharfstein DO, Boyd CM, Frey K, Karm L, Boult C: Guided care and the cost of complex healthcare: a preliminary report. American Journal of Managed Care 15(8):555-9, 2009.

Joffe A, McNeely C, Colantuoni E, An MW, Wang W, Scharfstein D: Evaluation of school-based smoking-cessation interventions for self-described adolescent smokers. Pediatrics 124(2):e187-94, 2009.

Egleston BL, Scharfstein DO,

MacKenzie E: On estimation of the survivor average causal effect in observational studies when important confounders are missing due to death. Biometrics 65(2):497-504, 2009.

Wolff JL, Rand-Giovannetti E, Palmer S, Wegener S, Reider L, Frey K, Scharfstein D, Boult C: Caregiving and chronic care: the guided care program for families and friends. Journals of Gerontology Series A 64(7):785-91, 2009.

Dodd-O JM, Hristopoulos M, Scharfstein D, Brower R, Hassoun P, King LS, Becker P, Liu M, Wang W, Hassoun HT, Rabb H: Interactive effects of mechanical ventilation and kidney health on lung function in an in vivo mouse model. American Journal of Physiology. Lung Cellular and Molecular Physiology 296(1):L3-L11, 2009.

Fox Z, Phillips A, Cohen C, Neuhaus J, Baxter J, Emery S, Hirschel B, Hullsiek KH, Stephan C, Lundgren J, SMART Study Group (includes Scharfstein D): Viral resuppression and detection of drug resistance following interruption of a suppressive non-nucleoside reverse transcriptase inhibitor-based regimen. AIDS 22(17):2279-89, 2008.

Shardell M, Scharfstein DO, Vlahov D, Galai N: Sensitivity analysis using elicited expert information for inference with coarsened data: illustration of censored discrete event times in the AIDS Link to Intravenous Experience (ALIVE) Study. American Journal of Epidemiology 168(12):1460-9, 2008.

Shardell M, Scharfstein DO, Vlahov D, Galai N: Inference for cumulative incidence functions with informatively coarsened discrete event-time data. Statistics in Medicine 27(28):5861-79, 2008.

Brotman RM, Klebanoff MA, Nansel TR, Andrews WW, Schwebke JR, Zhang J, Yu KF, Zenilman JM, Scharfstein DO: A longitudinal study of vaginal douching and bacterial vaginosis--a marginal structural modeling analysis. American Journal of Epidemiology 168(2):188-96, 2008.

Strategies for Management of Antiretroviral Therapy (SMART) Study Group (includes Scharfstein D), Emery S, Neuhaus JA, Phillips AN, Babiker A, Cohen CJ, Gatell JM, Girard PM, Grund B, Law M, Losso MH, Palfreeman A, Wood R: Major clinical outcomes in antiretroviral therapy (ART)-naive participants and in those not receiving ART at baseline in the SMART study. Journal of Infectious Diseases 197(8):1133-44, 2008.

Strategies for Management of Antiretroviral Therapy (SMART) Study Group (includes Scharfstein D), Lundgren JD, Babiker A, El-Sadr W, Emery S, Grund B, Neaton JD, Neuhaus J, Phillips AN: Inferior clinical outcome of the CD4+ cell count-guided antiretroviral treatment interruption strategy in the SMART study: role of CD4+ Cell counts and HIV RNA levels during follow-up. Journal of Infectious Diseases 197(8):1145-55, 2008.

Scharfstein DO, Ryea JL, Caffo B: Accounting for within-patient correlation in assessing relative sensitivity of an adjunctive diagnostic test: application to lung cancer. Statistics in Medicine 27(12):2110-26, 2008.

Brotman RM, Ghanem KG, Klebanoff MA, Taha TE, Scharfstein DO, Zenilman JM: The effect of vaginal douching cessation on bacterial vaginosis: a pilot study. American Journal of Obstetrics and Gynecology 198(6):628.e1-7, 2008.

Bozzette SA, Ake CF, Tam HK, Phippard A, Cohen D, Scharfstein DO, Louis TA: Long-term survival and serious cardiovascular events in HIV-infected patients treated with highly active antiretroviral therapy. Journal of Acquired Immune Deficiency Syndromes 47(3):338-41, 2008.

Boult C, Reider L, Frey K, Leff B, Boyd CM, Wolff JL, Wegener S, Marsteller J, Karm L, Scharfstein D: Early effects of "guided care" on the quality of health care for multimorbid older persons: a cluster-randomized controlled trial. Journals of Gerontology Series A 63(3):321-7, 2008.

Rivara FP, Mackenzie EJ, Jurkovich GJ, Nathens AB, Wang J, Scharfstein DO: Prevalence of pain in patients 1 year after major trauma. Archives of Surgery 143(3):282-7, 2008.

MacKenzie EJ, Rivara FP, Jurkovich GJ, Nathens AB, Egleston BL, Salkever DS, Frey KP, Scharfstein DO: The impact of trauma-center care on functional outcomes following major lower-limb trauma. Journal of Bone and Joint Surgery 90(1):101-9, 2008.

MacKenzie EJ, Rivara FP, Jurkovich GJ, Nathens AB, Frey KP, Egleston BL, Salkever DS, Weir S, Scharfstein DO: The national study on costs and outcomes of trauma. Journal of Trauma 63(6 Suppl):S54-67, 2007.

Li X, Caffo B, Scharfstein D: On the potential for illogic with logically defined outcomes. Biostatistics 8(4):800-4, 2007.

Egleston BL, Scharfstein DO, Freeman EE, West SK: Causal inference for non-mortality outcomes in the presence of death. Biostatistics 8(3):526-45, 2007.

Minkovitz CS, Strobino D, Mistry KB, Scharfstein DO, Grason H, Hou W, Ialongo N, Guyer B: Healthy Steps for Young Children: sustained results at 5.5 years. Pediatrics 120(3):e658-68, 2007.

Eaton WW, Kalaydjian A, Scharfstein DO, Mezuk B, Ding Y: Prevalence and incidence of depressive disorder: the Baltimore ECA follow-up, 1981-2004. Acta Psychiatrica Scandinavica 116(3):182-8, 2007.

Rotnitzky A, Farall A, Bergesio A, Scharfstein D: Analysis of failure time data under competing censoring mechanisms. Journal of the Royal Statistical Society-B 69(3):307-327, 2007.

Shardell M, Scharfstein DO, Bozzette SA: Survival curve estimation for informatively coarsened discrete event-time data. Statistics in Medicine 26(10):2184-2202 , 2006.

Scharfstein DO, Halloran ME, Chu H, Daniels MJ: On estimation of vaccine efficacy using validation samples with selection bias. Biostatistics 7(4):615-29, 2006.

Nathens AB, Rivara FP, MacKenzie EJ, Maier RV, Wang J, Egleston B, Scharfstein DO, Jurkovich GJ: The impact of an intensivist-model ICU on trauma-related mortality. Annals of Surgery 244(4):545-54, 2006.

Hogan JW, Scharfstein DO: Estimating causal effects from multiple cycle data in studies of in vitro fertilization. Statistical Methods in Medical Research 15(2):195-209, 2006.

MacKenzie EJ, Rivara FP, Jurkovich GJ, Nathens AB, Frey KP, Egleston BL, Salkever DS, Scharfstein DO: A national evaluation of the effect of trauma-center care on mortality. New England Journal of Medicine 354(4):366-78, 2006.

Elizabeth Stuart

$Description: C:\Users\margo\my_doc\My Web Sites\Publication\UP_AR~11.gif$ (go to top of document)

Sahastrabuddhe S, Gupta A, Stuart E, Godbole S, Ghate M, Sahay S, Gangakhedkar R, Risbud A, Divekar A, Bollinger R, Mehendale SM: Sexually transmitted infections and risk behaviors among transgender persons (Hijras) of Pune, India. Journal of Acquired Immune Deficiency Syndromes 59(1):72-8, 2012.

Christensen AL, Stuart EA, Perry DF, Le HN: Unintended pregnancy and perinatal depression trajectories in low-income, high-risk Hispanic immigrants. Prevention Science 12(3):289-99, 2011.

Stuart EA, Cole SR, Bradshaw CP, Leaf PJ: The use of propensity scores to assess the generalizability of results from randomized trials. Journal of the Royal Statistical Society-A 174(2):369-386, 2011.

Werner RM, Konetzka RT, Stuart EA, Polsky D: Changes in patient sorting to nursing homes under public reporting: improved patient matching or provider gaming? Health Services Research 46(2):555-71, 2011.

Azur MJ, Stuart EA, Frangakis C, Leaf PJ: Multiple imputation by chained equations: what is it and how does it work? International Journal of Methods in Psychiatric Research 20(1):40-49, 2011.

Lee BK, Lessler J, Stuart EA: Weight trimming and propensity score weighting. PLoS One 6(3):e18174, 2011.

Werner RM, Kolstad JT, Stuart EA, Polsky D: The effect of pay-for-performance in hospitals: lessons for quality improvement. Health Affairs 30(4):690-8, 2011.

Le HN, Perry DF, Stuart EA: Randomized controlled trial of a preventive intervention for perinatal depression in high-risk Latinas. Journal of Consulting and Clinical Psychology 79(2):135-41, 2011.

Landa RJ, Holman KC, O'Neill AH, Stuart EA: Intervention targeting development of socially synchronous engagement in toddlers with autism spectrum disorder: a randomized controlled trial. Journal of Child Psychology & Psychiatry 52(1):13-21, 2011.

Stuart EA, Ialongo NS: Matching methods for selection of subjects for follow-up. Multivariate Behavioral Research 45(4):746-765, 2010.

Green KM, Doherty EE, Stuart EA, Ensminger ME: Does heavy adolescent marijuana use lead to criminal involvement in adulthood? Evidence from a multiwave longitudinal study of urban African Americans. Drug and Alcohol Dependence 112(1-2):117-25, 2010.

Kuramoto SJ, Stuart EA, Runeson B, Lichtenstein P, Langstrom N, Wilcox HC: Maternal or paternal suicide and offspring's psychiatric and suicide-attempt hospitalization risk. Pediatrics 126(5):e1026-32, 2010.

Stuart EA,

Cole SR, Bradshaw CP, Leaf PJ: The use of propensity scores to assess the generalizability of results from randomized trials. Journal of the Royal Statistical Society A 174(2):369-386, 2010.

Harder VS, Stuart EA, Anthony JC: Propensity score techniques and the assessment of measured covariate balance to test causal associations in psychological research. Psychological Methods 15(3):234-49, 2010.

Stuart EA: Matching methods for causal inference: a review and a look forward. Statistical Science 25(1):1-21, 2010.

Werner R, Stuart E, Polsky D: Public reporting drove quality gains at nursing homes. Health Affairs 29(9):1706-1713, 2010.

Cole SR, Stuart EA: Generalizing evidence from randomized clinical trials to target populations: the ACTG 320 trial. American Journal of Epidemiology 172(1):107-15, 2010.

Lee BK, Lessler J, Stuart EA: Improving propensity score weighting using machine learning. Statistics in Medicine 29(3):337-46, 2010.

Stuart EA, Marcus SM, Horvitz-Lennon MV, Gibbons RD, Normand SL: Using non-experimental data to estimate treatment effects. Psychiatric Annals 39(7):41451, 2009.

Jo B, Stuart EA: On the use of propensity scores in principal causal effect estimation. Statistics in Medicine 28(23):2857-75, 2009.

Werner RM, Konetzka RT, Stuart EA, Norton EC, Polsky D, Park J: Impact of public reporting on quality of postacute care. Health Services Research 44(4):1169-87, 2009.

Cooley-Strickland M, Quille TJ, Griffin RS, Stuart EA, Bradshaw CP, Furr-Holden D: Community violence and youth: affect, behavior, substance use, and academics. Clinical Child and Family Psychology Review 12(2):127-56, 2009.

Stuart EA, Azur M, Frangakis C, Leaf P: Multiple imputation with large data sets: a case study of the Children's Mental Health Initiative. American Journal of Epidemiology 169(9):1133-9, 2009.

Wang Y, Browne DC, Petras H, Stuart EA, Wagner FA, Lambert SF, Kellam SG, Ialongo NS: Depressed mood and the effect of two universal first grade preventive interventions on survival to the first tobacco cigarette smoked among urban youth. Drug and Alcohol Dependence 100(3):194-203, 2009.

Marcus SM, Siddique J, Have TR, Gibbons RD, Stuart E, Normand SL: Balancing treatment comparisons in longitudinal studies. Psychiatric Annals 38(12):805-811, 2008.

Stuart EA, Perry DF, Le HN, Ialongo NS: Estimating intervention effects of prevention programs: accounting for noncompliance. Prevention Science 9(4):288-98, 2008.

Stuart EA, Rubin DB: Matching with multiple control groups with adjustment for group differences. Journal of Educational and Behavioral Statistics 33(3):279-306, 2008.

Harder VS, Stuart EA, Anthony JC: Adolescent cannabis problems and young adult depression: male-female stratified propensity score analyses. American Journal of Epidemiology 168(6):592-601, 2008.

Miech R, Azur M, Dusablon T, Jowers K, Goldstein AB, Stuart EA, Walrath C, Leaf PJ: The potential to reduce mental health disparities through the comprehensive community mental health services for children and their families program. Journal of Behavioral Health Services and Research 35(3):253-64, 2008.

Crum RM, Green KM, Storr CL, Chan YF, Ialongo N, Stuart EA, Anthony JC: Depressed mood in childhood and subsequent alcohol use through adolescence and young adulthood. Archives of General Psychiatry 65(6):702-712, 2008.

Salkever DS, Johnston S, Karakus MC, Ialongo NS, Slade EP, Stuart EA: Enhancing the net benefits of disseminating efficacious prevention programs: a note on target efficiency with illustrative examples. Administration and Policy in Mental Health 35(4):261-9, 2008.

Stuart EA: Developing practical recommendations for the use of propensity scores: Discussion of 'A critical appraisal of propensity score matching in the medical literature between 1996 and 2003' by Peter Austin, Statistics in Medicine. Statistics in Medicine 27(12):2062-5, 2008.

Slade EP, Stuart EA, Salkever DS, Karakus M, Green KM, Ialongo N: Impacts of age of onset of substance use disorders on risk of adult incarceration among disadvantaged urban youth: A propensity score matching approach. Drug and Alcohol Dependence 95(1-2):1-13, 2008.

Stuart EA, Green KM: Using full matching to estimate causal effects in nonexperimental studies: Examining the relationship between adolescent marijuana use and adult outcomes. Developmental Psychology 44(2):395-406, 2008.

McConnell S, Stuart EA, Devaney B: The truncation-by-death problem: what to do in an experimental evaluation when the outcome is not always defined. Evaluation Review 32(2):157-86, 2008.

Cook SR,

Stuart EA: Comment on Dominici et al: Does the effect of micronutrient supplementation on neonatal survival vary with respect to the percentiles of the birth weight distribution? Bayesian Analysis 2(1):31-36