CURRICULUM VITAE



CURRICULUM VITAE

James P. Hughes

Business Address:

University of Washington

Department of Biostatistics 357232

Seattle, Washington 98195

Tel: 206\616-2721

Home Address:

8023 Forest Dr. NE

Seattle, Washington 98115

Tel: 206-526-2797

3. Education

B.S., Wildlife Ecology, University of Maine, Orono, Maine, 1977

M.S., Biomathematics, University of Washington, Seattle, Washington, 1980

Ph.D., Statistics, University of Washington, Seattle, Washington, 1993

4. Positions

Teaching Assistant, Research Assistant, 1977-79

Engineering Technician, Department of Civil Engineering, University of Washington, Seattle, Washington, 1979-80

Systems Analyst Programmer, State Employee's Insurance Board Utilization Study, University of Washington, Seattle, Washington, 1980

Mathematical Statistician, Northwest and Alaska Fisheries Center, Seattle, Washington, March 1980-81

Research Associate, Department of Biostatistics, University of Washington, Seattle, Washington, 1981-84

Researcher, Department of Biostatistics. University of Washington, Seattle, Washington, 1984-91

Research Assistant Professor, Department of Biostatistics, University of Washington, Seattle, Washington, 1993-1999

Associate Director, Biostatistical Core, Center for AIDS Research, 1994-1997

Visiting Scientist, CSIRO, Perth, Australia, 1996, 2000

Director, Biostatistical Core, STD Collaborative Research Center, 1997-2008

Research Associate Professor, Department of Biostatistics, University of Washington, Seattle, Washington, 1999-2005

Associate Professor, Department of Biostatistics, University of Washington, Seattle, Washington, 2002 – 2005

Associate Member, Fred Hutchinson Cancer Research Center, Seattle, Washington, 2004 - 2005

Professor, Department of Biostatistics, University of Washington, Seattle, Washington, 2005 – present

Member, Fred Hutchinson Cancer Research Center, Seattle, Washington, 2005 - present

6. Awards/Honors

Xi Sigma Pi (Forestry Honors Society)

IBM Fellowship Award for academic year 1990-91, 1991-92

Z.W. Birnbaum Award (Outstanding graduate student, Department of Statistics), 1990

First Place (written), Student Paper Competition, WNAR, Biometric Society, 1992

SPHCM Outstanding Teacher Award, 2007

James Hughes contributed to the reports of the Intergovenmental Panel on Climate Change, which was awarded the Nobel Peace Prize in 2007

American Association for Cancer Research Team Science Award (HPV Research), 2011

UW Prentice Professor of Biostatistics, 2013/2014

7. Other Professional Activities (outside of UW)

Member, The Biometric Society (Western North American Region) 1979 - present

Member, American Statistical Association 1981 – present

Instructor, Practical Applications of Groundwater Flow and Contaminant Transport Models Workshop, University of Washington, 1985

Instructor, Geostatistics, Theory and Application Workshop, NCASI, Kalamazoo, Michigan, 1986

Attendee, Provost’s Faculty Workshop on Teaching and Learning, University of Washington, August 2002.

Track Director, Biostatistics Track, Principles of HIV and STD Research, 2 week course, 1993, 1994, 1995, 1999, 2000

Instructor, Principles of HIV and STD Research, 2 week course, 1993 – 2003

Instructor, Principles of HIV and STD Research, Nairobi, Kenya, January, 2009

Instructor, Responsible Conduct of Research, International AIDS Research and Training Program, University of Washington, 2003-2014

Instructor, Short Course (15 hr) “Introduction to Biostatistics”, Summer Institute in Statistical Genetics, Seattle, WA 2006-2018

Instructor, Short Course (10 hr) “Cluster Randomized Trials”, Pontificia Universidad Catholica del Peru, Lima, Peru 2014

Co-Instructor, Short Course (4 hr) “Sample Size Calculations for Cluster, Cluster Crossover and Stepped Wedge Clinical Trial, Society of Clinical Trials, Portland, OR 2018

Consultant, Environmental Protection Agency, Statistical Methodologies for Hazardous Waste Sites, 1986

Consultant, Bovay Northwest, Inc., Data Analysis for Frontier Hard Chrome Hazardous Waste Site, Spokane, Washington, 1987

Consultant, Parametrix, Data Analysis for Midway Landfill Site, Bellevue, Washington, 1988

Consultant, Allen Ellsworth, Effect of Two Drugs on Mountain Sickness, Seattle, Washington, 1988

Member, Advisory Committee for the Ruston-Vashon Island Remedial Investigation, Environmental Toxicology International, Inc., Seattle, Washington, 1988

Consultant, Trinus Partners, Sampling Considerations in Evaluation of Pap Smears, Seattle, Washington, 1989

Consultant, Laboratory of Pathology of Seattle, Estimating the Risk of Down's Syndrome, Seattle, Washington, 1989

Consultant, Neopath, Automated Evaluation of Pap Smears, Seattle, Washington, 1990-94

Consultant, Honolulu Heartwatch Program, Developing a portable data entry system, Honolulu, Hawaii, 1991

Co-Chair, HPTN054 - A population-based randomized comparison of targeted versus combined nevirapine (NVP) access to improve drug coverage in settings of high HIV seroprevalence, 2003 – 2004.

Organizer: Invited session “Statistical Issues in Studies of Mother-to-Child Transmission of HIV,” ENAR, 2002

Member, Data Safety and Monitoring Board, "Breast Feeding and Transmission of HIV," (Dr. Joan Kreiss, P.I.), 1994-1999

Chair, Data Safety and Monitoring Board, "A Randomized Trial of CAM Comfort Care at the End of Life”, (Dr. Bill Lafferty, P.I.), 2004 - 2006

Chair, Data Safety and Monitoring Board, “Reducing Vaginal Infections in women at risk for HIV-1” (Dr. R. Scott McClelland, P.I.), 2004 - 2006

Member, Data Safety and Monitoring Board, "MCI-Rosiglitazone - The Effects of Rosiglitazone on Cognition in Patients with Mild Cognitive Impairment”, (Dr. Suzanne Craft, PI), 2006-10

Member, Data Safety and Monitoring Board, "Optimizing Pediatric HAART”, (Dr. Grace John-Stewart, PI), 2006

Chair, Data Safety and Monitoring Board, “Cefpodoxime vs. Ciprofloxacin for Acute Cystitis”, (Dr. Mac Hooten, PI), 2007

Member, Data Safety and Monitoring Board, "SNIFF - Theraputic Effects of Intranasal Insulin in AD”, (Dr. Suzanne Craft, PI), 2007 – 12

Member, Data Safety and Monitoring Board, " Intranasal Insulin Trial”, (Dr. Suzanne Craft, PI), 2012

Member, Data Safety and Monitoring Board, "A double-blind, randomized trial of monthly treatment with topical metronidazole and miconazole co-formulated vaginal suppositories versus placebo for preventing vaginal infections in HIV-seronegative women", (Dr. Scott McClelland, PI), 2010 – 2014

International Advisory Committee for HPTN 071 (PopART Trial), 2013 – 2018

External Advisory Committee for Veteran’s Administration Virtual Specialty Care QUERI Program (John Fortney, MD PI) 2015 - 2018

Member, Data Safety and Monitoring Board, “Interventions to Improve the HIV PrEP Cascade among Methamphetamine Users” (Dr. Joanne Steckler PI), 2018 - present

Chair, External Advisory Panel, PRIMA study (Dr. Grace John-Stewart, PI), 2018 - present

Chair, Data Monitoring Committee, Obumu study (Dr. Connie Celum, PI), 2018 – present

Member, Data Monitoring Committee, MMF study (Dr. Josh Schiffer, PI), 2018 - present

Chair, Data Monitoring Committee, JiPima study (Dr. Jared Baeten, PI) , 2019 – present

Member, Protocol Review Committee, Primary Palliative Care for Emergency Medicine (PRIM-ER) (Dr. Corita Grudzen, PI), 2019

Member, Data Safety and Monitoring Board, ACE-PEACE (Dr. James Tulsky, PI), 2019 - present

Member, Data Monitoring Committee, Partners Prevention Program (Dr. Renee Heffron, PI), 2019 - present

Member, Data Safety and Monitoring Board, Deep Brain Stimulation trial (Dr. Ali Rezai, PI), 2019 - present

HIV Prevention Trials Network Study Monitoring Committee (chair since 2009), 2000-present

Statistical Editor, Journal of Infectious Diseases, 1994-2002

Referee for: Water Resources Research, 1987, 1989, 1991-95, 2002, 2006; Journal of Applied Meteorology, 1995; Climate Research, 1997, 1998, 1999, 2001, 2005; Journal of Hydrology, 2006; Journal of Gerontology, 1997; J. Am. Stat. Assoc., 1998, 2001, 2012, 2013, 2014; J. Geophysical Research, 1998; Journal of Hydrometeorology, 1999; International Journal of Climatology, 2000; Biometrical Journal, 2000; Biometrics, 2000, 2006, 2007, 2008, 2009, 2011; Biometrika, 2002; Biostatistics, 2002, 2011, 2016; Statistics in Medicine, 2003, 2006, 2008, 2009, 2010, 2011, 2012, 2014, 2015, 2016, 2017, 2019; American Statistician, 2003; J. Infectious Diseases 2003-2005; BMC Medical Research Methods, 2007; STD, 2008, 2010, 2013; PloS One, 2008, 2015, 2016 ,2017, 2018; Gynocological Oncology, 2008, 2009; American Journal of Epidemiology, 2009, 2010, 2014, 2017; Clinical Trials, 2010, 2012; American Journal of Public Health, 2010; Future Virology, 2011; PloS Medicine, 2012; Plos Computational Biology, 2013; Statistical Methods in Medical Research, 2013; J Acquired Immune Deficiency Syndrome, 2015; J of Clinical Epidemiology, 2016; Sexually Transmitted Diseases, 2016, 2017; Trials, 2017; Psychological Methods, 2018

CDC Review Panel “Behavioral Interventions in STD Research”, 1996

Ad-hoc reviewer for Alberta Heritage Foundation for Medical Research, 2003

Ad-hoc reviewer for NIH Center for Scientific Review Special Emphasis Panel, 2004

Ad-hoc reviewer for UW Royalty Research Fund, 2007

Ad-hoc reviewer for Bill and Melinda Gates Foundation, 2008

Ad-hoc reviewer for NIH NIAID: AIDS Research Review Committee, 2010

Ad-hoc reviewer for NIH NIAID: Infectious Disease, Reproductive Health, and Asthma/Pulmonary Conditions study section, 2011

Ad-hoc reviewer for NIH NIAID: HIV/AIDS Implementation Science Targeting Drug Using Populations: A Collaboration with PEPFAR study section, 2011

Ad-hoc reviewer for NIH NIAID: Understanding Viral Rebound study section, 2016

External reviewer for Eric Vittinghoff promotion, 2016

External reviewer for Arni Rao promotion, 2017

External reviewer for Anastasia Ivanova promotion, 2017

External reviewer for Donna Spiegelman promotion, 2017

External reviewer for Xiangrong Kong promotion, 2018

External reviewer for Elizabeth Turner promotion, 2019

8. Bibliography

Articles in Refereed Journals

Hughes JP, Lettenmaier DP: Data requirements for kriging: Estimation and network design. Water Resour Res 17:1641-1650, 1981.

van Belle G, Hughes JP: Monitoring for water quality: Fixed stations vs. intensive surveys. J Water Pollut Control Soc 55:400-404, 1983.

van Belle G, Hughes JP: Nonparametric tests for trend in water quality. Water Resour Res 20:127-136, 1984.

Jacobs RF, Wilson CB, Palmer S, Kessler D, Murphy J, Hughes JP, van Belle G, et al.: Factors related to the appearance of alveolar macrophages in the developing lung. Am Rev Respir Dis 13:548-553, 1985.

Luthy DA, Shy KK, van Belle G, Larson EB, Hughes JP, Benedetti TJ, et al.: A randomized trial of electronic fetal monitoring versus periodic auscultation in premature labor. J Obstet Gynecol 69(5):687-695, 1987.

Hughes JP, Millard S: A tau-like test for trend in the presence of multiple censoring points. Water Resour Bull 24:521-531, 1988.

Hughes JP, Polissar L, van Belle G: Power of health effects studies of communities surrounding arsenic producing industries. Int J Epidemiol 17:407-413, 1988.

Hughes JP, van Belle G, Kukull W, Larson EH, Teri L: On the uses of registries for Alzheimer disease. Alzheimer Dis Assoc Disord 3(4):205-217, 1989.

Larson EB, van Belle G, Shy KK, Luthy DA, Strickland D, Hughes JP: Fetal monitoring and predictions by clinicians: Observations during a randomized clinical trial of electronic fetal monitoring in very low birthweight infants. Obstet Gynecol 74:584-589, 1989.

Morris JC, Heyman A, Mohs RC, Hughes JP, van Belle G, Fillenbaum G, Mellits ED, Clark C: The consortium to establish a registry for Alzheimer's Disease (CERAD). I. Clinical and neuropsychological assessment of Alzheimer's Disease. Neurology 39:1159-1164, 1989.

Teri L, Hughes JP, Larson EB: Cognitive deterioration in Alzheimer's disease: Behavioral and health factors. J Gerontol 45:58-63, 1990.

Shy KK, Luthy DA, Bennett FC, Whitfield M, Larson EB, van Belle G, Hughes JP, Stenchever MA: A randomized clinical trial of electronic fetal monitoring and its effects on the neurodevelopment of premature infants. N Engl J Med 322:588-593, 1990.

Kukull WA, Larson EB, Reifler BV, Lampe TH, Yerby M, Hughes JP: Interrater reliability of Alzheimer's disease diagnosis. Neurology 40:257-260, 1990.

Kukull WA, Larson EB, Reifler BV, Lampe TH, Yerby M, Hughes JP: The validity of 3 clinical diagnostic criteria for Alzheimer's disease. Neurology 40:1364-1369, 1990

van Belle G, Uhlmann RF, Hughes JP, Larson EB: Reliability of estimates of changes in mental status test performance in senile dementia of the Alzheimer type. J Clin Epidemiol 43:589-595, 1990.

Larson EB, Hughes JP, Kukall WA: New data gathering, instrument selection, and evaluation of existing information for determining entry. Aging-Milano 2:215-222, 1990.

Polissar L, Lowry K, Kalman DA, Hughes JP, van Belle G, Covert DS, Burbacher TM, Bolgiano D, Mottet NK: Pathways of human exposure to arsenic in a community surrounding a copper smelter. Environ Res 52:29-47, 1990.

Kalman DA, Hughes J, van Belle G, Burbacher T, Bolgiano D, Coble K, Mottet NK, Polissar L: The effect of variable environmental arsenic contamination on urinary concentrations of arsenic species. Environmental Health Perspectives 89:145-151, 1990.

Jensen CF, Peskind ER, Veith RC, Hughes J, Crowley DS, Roy-Byrne P, Raskind MA: Hypertonic saline infusion induces panic in patients with panic disorder. Biol Psychiatry 30: 628-630, 1991.

Welsh KA, Butters N, Hughes JP, Mohs R, Heyman A: Detection of abnormal memory decline in mild cases of Alzheimer's disease using CERAD neuropsychological measures. Arch Neurol 48:278-281, 1991.

Mirra SS, Heyman A, McKeel D, Sumi MS, Crain BJ, Brownlee LM, Vogel FS, Hughes JP, van Belle G, Berg L, et al: The Consortium to Establish a Registry for Alzheimer's Disease (CERAD). Part II: Standardization of the neuropathological assessment of Alzheimer's disease. Neurology 41:479-486, 1991.

Edwards JK, Larson EB, Hughes JP, Kukull WA: Are there clinical and epidemiological differences between familial and nonfamilial Alzheimer's disease? J Am Geriat Soc 39:477-483, 1991.

Davis PC, Gray L, Albert M, Wilkinson W, Hughes J, Heyman A. Gado M, Kumar AJ, Destran S, Lee C, Duvall E, Kido D, Nelson MJ, Bello J, Weather S, Jolesz F, Kikinis R, Brooks M: The consortium to establish a registry for Alzheimer's disease (CERAD). Part III. Reliability of a standardized MRI evaluation of Alzheimer's disease. Neurology 42:1676-1680, 1992.

Welsh KA, Butters N, Hughes JP, Mohs R, Heyman A: Detection and staging of dementia in Alzheimer's disease: Use of the neuropsychological measures developed for the consortium to establish a registry for Alzheimer's disease (CERAD). Arch Neurol 49:448-452, 1992.

Peskind ER, Radant A, Dobie DJ, Hughes J, Wilkinson CW, Sikkema C, Veith RC, Dorsa DM, Raskind MA: Hypertonic saline infusion increases plasma norepinephrine concentrations in normal men. Psychoneuroendocrinology 18:103-113, 1993.

Hughes JP, Lettenmaier DP, Guttorp P: A stochastic approach for assessing the effect of changes in regional circulation patterns on local precipitation. Water Resour Res 29:3303-3315, 1993.

Hughes JP, Guttorp P: A class of stochastic models for relating synoptic atmospheric patterns to local hydrologic phenomenon. Water Resour Res 30:1535-1546, 1994

Mirra SS, Gearing M, McKeel DW, Hughes JP, van Belle G, Heyman A: Interlaboratory comparison of neuropathology assessments in Alzheimer's disease: A multicenter study of the Consortium to Establish a Registry for Alzheimer's Disease (CERAD). J Neuropathology and Experimental Neurology 53:303-315, 1994.

Hughes JP, Guttorp P: Incorporating spatial dependence and atmospheric data in a model of precipitation. J Applied Meteorology 33:1503-1515, 1994.

Zorita E, Hughes JP, Lettenmaier DP, von Storch H: Stochastic characterization of regional circulation patterns for climate model diagnosis and estimation of local precipitation. J Climate 8:1023-1042, 1995.

Snowden MB, Bowen JD, Hughes J, Larson EB: A study of Alzheimer's dementia patients with Parkinsonian features. J Geriatric Psych and Neurology 8:154-158, 1995.

Garnett GP, Hughes JP, Anderson RM, Stoner BP, Aral SO, Whittington WL, Handsfield HH, Holmes KK: Sexual mixing patterns of patients attending STD clinics. Sexually Transmitted Diseases23:248-257, 1996.

Schacker T, Collier A, Hughes J, Shea T, Corey L: The clinical and epidemiological presentation of primary HIV infection. Annals Int. Medicine 125:257-264, 1996.

Hooton TM, Scholes D, Hughes JP, Winter C, Roberts P, Stapleton A, Stergachis A, Stamm WE: A prospective study of risk factors for urinary tract infection in young women. New England J. of Med 335:468-474, 1996.

Patton DL, Sweeny YC, Bohannon NJ, Clark AM, Hughes JP, Cappuccio A, Campbell LE, Stamm WE: Effects of doxycycline and anti-inflammatory agents on experimentally induced chlamydia upper genital tract infection in female macaques. Journal of Infectious Diseases 175:648-654, 1997.

Paxton WB, Coombs RW, McElrath J, Keefer ML, Hughes JP, Sinangil F, Chernoff D, Demeter L, Williams B, Corey L: Longitudinal analysis of quantitative virologic measures in HIV infected individuals with greater than 400 CD4+ lymphocytes; implications for applying measurements to individual patients. Journal Infectious Diseases 175:247-254, 1997.

Hughes JP: Computing the observed information in the hidden Markov model using the EM algorithm. Statistics and Probability Letters 32:107-114, 1997.

Melvin AJ, Burchett SK, Watts DH, Hitti J, Hughes JP, McLellan CL, King PD, Johnson EJ, Williams BL, Frenkel LM, Coombs RW: Effect of pregnancy and zidovudine (ZDV) therapy on viral load in HIV-1 infected women. J. Acquired Immune Deficiency Syndrome and Human Retrovirology 14:232-236, 1997.

*Smith HS, Hughes JP, Hooten TM, Roberts PL, Scholes D, Stergachis A, Stapleton A, Stamm WE: Antecedent antimicrobial use increases the risk of uncomplicated cystitis in young women. Journal of Clinical Infectious Diseases 25:63-68, 1997.

Magder LS, Hughes JP: Logistic regression when the outcome is measured with uncertainty. American Journal of Epidemiology 146:195-203, 1997.

Xi LF, Koutsky LA, Galloway DA, Kuypers J, Hughes JP, Wheeler CM, Holmes KK, Kiviat NB: Genomic variation of human papillomavirus type 16 and risk for high grade cervical intraepithelial neoplasia. J Natl Cancer Inst 89:796-802, 1997.

Fillenbaum GG, Beekly D, Edland SD, Hughes JP, Heyman A, van Belle G: Consortium to establish a registry for Alzheimer’s disease: Development, database structure, and selected findings. Topics in Health Information Management 18:47-58, 1997.

Lafferty WE, Hughes JP, Handsfield HH: Sexually transmitted diseases in men who have sex with men: acquisition of urethral infections by fellatio and implications for STD/HIV prevention. Sexually Transmitted Diseases 24:272-278, 1997.

Coombs RW, Speck CE, Hughes JP, Lee W, Sampoleo R, Ross SO, Dragovon J, Peterson G, Hooten TM, Collier AC, Corey L, Koutsky L, Krieger JN: Association between culturable HIV-1 in semen and HIV-1 RNA levels in semen and blood. J Inf Diseases 177:320-330, 1997.

Edelstein RE, Manns-Arcuino LA, Hughes JP, Melvin AJ, Mohan KM, King PD, McClellan CL, Murante BL, Kassman BP, Frenkel LM: Risk of mother-to-infant transmission of HIV-1 is not reduced in (32ccr5/CCR5 heterozygotes. J. Acquired Immune Deficiency Syndromes and Human Retrovirology 16:243-246, 1997.

Schwartz MA, Lafferty WE, Hughes JP, Handsfield HH: Risk factors for urethritis in heterosexual men: The role of fellatio and other sexual practices. Sexually Transmitted Diseases 24:449-455, 1997.

Musey L, Hughes JP, Schacker T, Shea T, Corey L, McElrath MJ: Cytotoxic T cell responses, viral load and disease progression in early HIV-1 infection. New England J Med 337:1267-1274, 1997.

Schacker TW, Hughes JP, Shea T, Coombs RW, Corey L: The natural history of primary HIV infection. Annals Int. Med 128:613-620, 1998.

Xi LF, Critchlow CW, Wheeler CM, Koutsky LA, Galloway DA, Kuypers J, Hughes JP, Hawes SE, Surawicz C, Goldbaum G, Holmes KK, Kiviat NB: Risk of anal carcinoma in situ in relation to human papillomavirus type 16 variants. Cancer Research 58(17):3839-3844, 1998.

Garcia PJ, Gotuzzo E, Hughes JP, Holmes KK: Syndromic management of sexually transmitted diseases in pharmacies: Evaluation and randomized intervention trial. Sexually Transmitted Infections 74, Suppl. 1:153-158, 1998.

Hughes JP, Guttorp P, Charles SP: A non-homogeneous hidden Markov model for precipitation. Applied Statistics 48:15-30, 1999.

Bates BC, Charles SP, Hughes JP: Stochastic downscaling of GCM simulations. Environmental Modelling and Software, 13:325-331, 1998.

Hughes JP: Mixed effects models with censored data with application to HIV RNA levels. Biometrics, 55:625-629, 1999.

Rosen H, Michel BR, Van Devanter DR, Hughes JP: Differential effects of myeloperoxidase-derived oxidants on escherichia coli DNA replication. Infection and Immunity 66:2655-2659, 1999.

Aral SO, Hughes JP, Stoner BP, Whittington WL, Handsfield HH, Anderson RM, Holmes KK: Demographic and behavioral concordance between sex partners: Effects of demographic and partnership characteristics, sexual behavior and infection status. Am J Public Health 89:825-833, 1999.

Musey L, Kreiger J, Hughes JP, Schacker T, Corey L, McElrath MJ: Early and persistent HIV-1-specific T helper dysfunction in blood and lymph nodes following acute HIV-1 infection. JID 180:278-284, 1999.

Charles SP, Bates BC, Whetton PH, Hughes JP: Validation of a downscaling model for changed climate conditions in southwestern Australia. Climate Research 12:1-14, 1999.

Charles SP, Bates BC, Hughes JP: A spatio-temporal model for downscaling precipitation occurrence and amounts. J Geophysical Research 104(D24):31657-31669, 1999.

Nduati R, John G, Mbori-Ngacha D, Richardson B, Overbaugh J, Mwatha A, Ndinya-Achola J, Bwayo J, Onyango FE, Hughes J, Kreiss J: Breast milk transmission of HIV-1: A randomized clinical trial of breastfeeding and formula feeding. JAMA 283:1167-1174, 2000.

Stoner BP, Whittington WL, Hughes JP, Aral SO, Holmes KK: Comparative epidemiology of heterosexual Gonococcal and Chlamydial networks: Implications for transmission patterns. Sexually Transmitted Diseases 27:215-223, 2000.

Bureau A, Hughes JP, Shiboski S: An S-PLUS implementation of hidden Markov Models in continuous time. J of Computational and Graphical Statistics 9:621-632, 2000.

*Bellone E, Hughes JP, Guttorp P: A hidden Markov model for downscaling synoptic patterns to precipitation amounts. Climate Research 15:1-12, 2000.

Carter JJ, Koutsky LA, Hughes JP, Lee SK, Kuypers J, Kiviat N, Galoway DA: Comparison of HPV 16, 18 and 6 capsid antibody responses following incident infection. JID 181:1911-1919, 2000.

Vanhems P, Hughes J, Collier AC, Vizzord J, Perrin L, Cooper DA, Hirschel B, Corey L: Comparison of clinical features, CD4+ and CD8+ responses among patients with acute HIV-1 infection from Geneva, Seattle and Sydney. AIDS 14:375-381, 2000.

Richardson BA and Hughes JP: Product limit estimation for infectious disease data when the diagnostic test for the outcome is measured with uncertainty. Biostatistics 1:341-354, 2000.

Hughes JP, Richardson BA: Analysis of a randomized trial to prevent vertical transmission of HIV-1. JASA 95:1032-1043, 2000.

*Thomas KK, Hughes JP, Kuypers JM, Kiviat NB, Lee SK, Adam D, Koutsky LA: Concurrent and sequential acquisition of different genital human papillomavirus types. JID 182:1097-1102, 2000.

Lin P, Koutsky LA, Critchlow CW, Apple RJ, Hawes SE, Hughes JP, Tour P, Dembele A, Kiviat NB: HLA class II DR-DQ and increased risk of cervical cancer among Senegalese women. Cancer Epidemiology, Biomarkers and Prevention 10:1037-1045, 2001.

Ghent Group (Alioum A, Dabis F, Dequae-Merchadou L, Haverkamp G, Hudgens M, Hughes J, Karon J, Leroy V, Newell M, Richardson B, Weverling G): Estimating the efficacy of interventions to prevent mother-to-child transmission of HIV in breast-feeding populations: Development of a consensus methodology. Statistics in Medicine 20:3539-3556, 2001.

Battle TJ, Golden MR, Suchland KL, Counts JM, Hughes JP, Stamm WE, Holmes KK: Evaluation of laboratory testing methods for Chlamydia trachomatis infection in the era of nucleic acid amplification. J Clin Microbiol 39:2924-2927, 2001.

Golden MR, Whittington WL, Handsfield HH, Malinski C, Clark A, Hughes JP, Gorbach PM, Holmes KK: Partner management for gonococcal and chlamydial infection: expansion of public health services to the private sector and expedited sex partner treatment through a partnership with commercial pharmacies. Sex Transm Dis 28:658-65, 2001.

Xi LF, Carter JJ, Galloway DA, Kuypers J, Hughes JP, Lee SK, Adam DE, Kiviat NB, Koutsky LA: Acquisition and natural history of human papillomavirus type 16 variant infection among a cohort of female university students. Cancer Epidemiol Biomarkers Prev 11:343-351, 2002.

Drain PK, Holmes KK, Hughes JP, Koutsky LA: Determinants of cervical cancer rates in developing countries. International Journal of Cancer, 10:199-205, 2002

Kulasingam SL, Hughes JP, Kiviat NB, Mao C, Weiss NS, Kuypers JM, Koutsky LA. Evaluation of Human Papillomavirus Testing in Primary Screening for Cervical Abnormalities: Comparison of Sensitivity, Specificity, and Frequency of Referral. J. Amer Medical Assoc. 288:1749-1757, 2002.

*Lystig TC, Hughes JP: Exact Computation of the Observed Information Matrix for Hidden Markov Models. JCGS 11:678 – 689, 2002.

Hughes JP, Garnett GP, Koutsky L: The theoretical population level impact of a prophylactic human papilloma virus vaccine. Epidemiology 13:631 – 639, 2002.

Bureau A, Shiboski S, Hughes JP: Applications of continuous time hidden Markov models to the study of misclassified disease outcomes. Statistics in Medicine 22:441-462, 2003.

Richardson BA, John-Stewart GC, Hughes JP, Nduati R, Mbori-Ngacha D, Overbaugh J, Kreiss JK. Breastmilk Infectivity in HIV-1 Infected Mothers. J. Infectious Diseases 187:736-740, 2003.

Winer R, Lee SK, Hughes JP, Adam D, Kiviat NB, Koutsky LA: Incident infection with genital Human Papillomavirus: Rates and risk factors among a cohort of female university students. Am J Epi. 157:218-226, 2003.

Richardson BA, Hughes JP. Modeling Breastmilk Infectivity in HIV-1 Infected Mothers. Biometrics 59:179-185, 2003.

Miller L and Hughes JP. Continuous combination oral contraceptive pills to eliminate withdrawal bleeding: a randomized trial. Obstetrics and Gynecology 101:653-661, 2003.

Sanchez J, Campos P, Courtois B, Gutierrez L, Carrillo C, Alarcon J, Gotuzzo E, Hughes J, Watts D, Hillier S, Buchanan K, Holmes KK: Prevention of STD in female sex workers: Prospective evaluation of condom promotion and strengthened STD services. Sexually Transmitted Diseases 30:273 – 279, 2003.

Mao C, Hughes J, Kiviat N, Kuypers J, Lee SK, Adam D, Koutsky L: Clinical findings among young women with genital human papilloma virus infection. Am J Ob and Gyn., 188:677-684, 2003.

Stoner BP, Whittington WL, Aral SO, Hughes JP, Handsfield HH, Holmes KK. Avoiding Risky Sex Partners: Perception of Partners’ Risks vs. Partners’ Self-Reported Risks. Sexually Transmitted Infections, 79:197-201, 2003.

Ghent Group (Alioum A, Cortina-Borja M, Dabis F, Dequae-Merchadou L, Haverkamp G, Hughes J, Karon J, Leroy V, Newell M, Richardson B, Weert L, Weverling G): Estimating the efficacy of interventions to prevent mother-to-child transmission of HIV in breastfeeding populations: Comparing statistical methods. Amer J Epidem., 158:596-605, 2003.

Hughes JP, Totten PA. Estimating the accuracy of polymerase chain reaction-based tests using end-point dilution. Biometrics, 59:505-511, 2003.

Zuckerman R, Whittington WL, Celum CL, Collis T, Lucchetti A, Sanchez J, Hughes JP, Sanchez J, Coombs, R. Factors Associated with Oropharyngeal HIV Shedding. J. Infectious Diseases, 188:142-145, 2003.

Onda T, Carter JJ, Koutsky LA, Hughes JP, Lee SK, Kuypers J, Kiviat N, Galloway DA: Natural history of IgA response against HPV16 capsomer following incident HPV16 infection in cervical secretions and sera. Virology, 312:213-221, 2003.

Dutro SM, Hebb JK, Garin CA, Kenny GE, Hughes JP, Totten PA. Development and performance of a high-throughput PCR assay for Mycoplasma genitalium. Sexually Transmitted Diseases 30:756-763, 2003.

Garcia P, Hughes JP, Carcemo C, Holmes KK. Training pharmacy workers in STD recognition, management, and prevention: A district-randomized controlled trial. Bulletin of the World Health Organization, 81:806-814, 2003.

Meier A, Richardson BA, Hughes JP. Discrete Proportional Hazards models for mismeasured outcomes. Biometrics, 59:947-954, 2003.

Drain PK, Smith JS, Hughes JP, Halperin DT, Holmes KK. Correlates of national HIV seroprevalence rates: An ecologic analysis of 122 developing countries. J. AIDS, 35:407-420, 2004.

Charles SP, Bates BC, Smith IN, Hughes JP: Statistical Downscaling of observed and modelled atmospheric fields. Hydrologic Processes, 18:1373-1394, 2004.

Manhart LE, Aral SO, Holmes KK, Critchlow CW, Hughes JP, Whittington WL, Foxman B. Influence of study population on the identification of risk factors for sexually transmitted diseases using a case-control design. American Journ. Epidem., 160:393-402, 2004.

Miller L, Thomas KK, Hughes JP, Holmes KK, Stout S, Eschenback DA. Randomized treatment trial of bacterial vaginosis to prevent post abortion complications. British J of Obstet Gynecol., 111:982-988, 2004.

Zuckerman RA, Whittington WL, Celum CL, Collis T, Lucchetti A, Sanchez JL, Hughes JP, Coombs RW. Higher concentration of human immunodeficiency virus RNA in rectal mucosa secretions than blood and seminal plasma among men who have sex with men independent of antiretroviral therapy. J Infect. Diseases 190:156-161, 2004.

Golden MR, Hughes JP, Cles LE, Crouse K, Gudgel K, Hu J, Swenson PD, Stamm, WE, Handsfield HH. Positive Predictive Value of APTIMA( Combo 2 Testing for Neisseria Gonorrhoeae in a Low Prevalence Population of Women. Clinical Infectious Disease 39:1387-1390, 2004.

Golden MR, Whittington WLH, Handsfield HH, Hughes JP, Stamm WE, Hogben M, Clark A, Malinski C, Larson J, Thomas KK, Holmes KK. Impact of Expedited Sex Partner Treatment on Recurrent or Persistent Gonorrhea or Chlamydial Infection: A Randomized Controlled Trial. New England J Medicine 352:676-685, 2005.

Winer RL, Kiviat NB, Hughes JP, Adam DE, Lee SK, Kuypers JM, Koutsky LA. Development and duration of human papillomavirus lesions, after initial infection. J Infect Dis 191:731-8, 2005.

*Ou SS, Hughes JP, Richardson BA. Methods for Assessing the Accuracy of PCR-Based Tests: Comparisons and Extensions. Statistics in Medicine 24:1755-1764, 2005.

Hughes JP. Using Baseline Data to Design a Group Randomized Trial. Statistics in Medicine 24:1983-1994, 2005.

Buchinsky FJ, Carter JJ, Wipf GC, Hughes JP, Koutsky LA, Galloway DA. Comparison of oral fluid and serum ELISAs in the determination of IgG response to natural human papillomavirus infection in university women. J. Clinical Virology 35:450-453, 2006.

Winer RL, Hughes JP, Feng Q, O’Reilly S, Kiviat NB, Koutsky LA. Consistent condom use from time of first vaginal intercourse and the risk of genital human papillomavirus infection in young women. NEJM 354:2645-2654, 2006.

Hughes JP, Kulich M. Cluster randomized trials for HIV prevention. Current Opinions in HIV and AIDS 1:471-475, 2006.

Brown EL, Wald A, Hughes JP, Morrow RA, Krantz E, Mayer K, Buchbinder S, Koblin B, Celum C. High risk of human immunodeficiency virus in men who have sex with men with herpes simplex virus type 2 in the EXPLORE study. American Journal of Epidemiology 164:733-74, 2006.

Drain PK, Halperin DT, Hughes JP, Klausner JD, Bailey RC. Male Circumcision, Religion, and Infectious Diseases: An Ecologic Analysis of 118 Developing Countries. BioMed Central. Infectious Diseases 6:172, 2006.

*Hussey MA, Hughes JP. Design and Analysis of Stepped Wedge Cluster Randomized Trials. Contemporary Clinical Trials, 28:182-191, 2007.[PMID: 16829207]

Gimbel-Sherr SO, Micek MA, Gimbel-Sherr KH, Koepsell T, Hughes JP, Thomas KK, Pfeiffer J, Gloyd SS. Using nurses to identify HAART eligible patients in Mozambique: results of a time series analysis. Human Resources for Health, 5:7, 2007. [PMID: 17328804]

Sanchez J, Lama JR, Kusunoki L, Manrique H, Goicochea P, Lucchetti A, Rouillon M, Pun M, Suarez L, Montano S, Sanchez JL, Tabet S, Hughes JP, Celum C. HIV-1, Sexually Transmitted Infections, and Sexual Behavior Trends Among Men Who Have Sex With Men in Lima, Peru. JAIDS 44:578-585, 2007.[PMID: 17279049]

Manhart LE, Holmes KK, Hughes JP, Houston LS, Totten PA. Mycoplasma genitalium in young adults in the United States: an emerging sexually transmitted infection. Am. Journal Public Health 97:1118-1125,2007. [PMID: 17463380]

Partridge JM, Hughes JP, Feng Q, Winer RL, Weaver BA, Xi L, Stern ME, Lee S, O’Reilly SF, Hawes SE, Kiviat NB, Koutsky LA. Genital human papillomavirus infection in men: Incidence and risk factors in a cohort of university students. JID 196: 1128-1136, 2007. [PMID: 17955430]

Richardson BA, Hughes JP. Statistical methods for determining the accuracy of quantitative polymerase chain reaction-based tests. Statistics in Medicine 26, 895-902, 2007. [PMID: 16685704]

Winer RL, Feng Q, Hughes JP, Yu M, Kiviat NB, O’Reilly S, Koutsky LA. Concordance of Self-Collected and Clinician-Collected Swab Samples for Detecting HPV DNA in Women 18 to 32 Years of Age. STD 34:371-377, 2007. [PMID: 17065848]

Golden MR, Hughes JP, Brewer DD, Holmes KK, Whittington WL, Hogben M, Malinski C, Golding A, Handsfield HH. Evaluation of a population-based program of expedited partner therapy for gonorrhea and chlamydial infection. STD 34: 598-603, 2007. [PMID: 17413683]

Soto RJ, Ghee AE, Nunez CA, Mayorga R, Tapia KA, Astete SG, Hughes JP, Buffardi AL, Holte SE, Holmes KK. Sentinel surveillance of STI/HIV and risk behaviors in vulnerable populations in five Central American countries. JAIDS 46:101-11, 2007. [PMID: 17972366]

Winer RL, Feng Q, Hughes JP, O’Reilly S, Kiviat NB, Koutsky LA. Risk of female HPV acquisition associated with a first male sex partner. JID 197:279-282, 2008. [PMID: 18179386]

Kratz M, Purnell JQ, Breen PA, Thomas KK, Utzschneider KM, Carr DB, Kahn SE, Hughes JP, Rutledge EA, Van Yserloo B, Yukawa M, Weigle DS. Reduced adipogenic gene expression in thigh adipose tissue precedes HIV-associated peripheral lipoatrophy. Journal of Clinical Endocrinology & Metabolism 93: 959-66, 2008. [PMC2266944]

Bernabe-Ortiz A, Curioso WH, Gonzales MA, Evangelista W, Castagnetto JM, Carcamo CP, Hughes J, Holmes KK, Garcia PJ. Use of handheld computers for the collection of sensitive data: a comparative study in Peru. BMC Medical Informatics and Decision Making 2008, 8:11 [PMC2323371]

Moore EE, Hawes SE, Scholes D, Boyko EJ, Hughes JP, Fihn SD. Sexual intercourse and risk of symptomatic urinary tract infection in post menopausal women. Journal General Internal Medicine 23(5):595-9, 2008. [PMC2324148]

Hughes JP Stepped Wedge Design. In Encyclopedia of Clinical Trials. John Wiley and Sons, New York, New York, 2008.

Celum C, Wald A, Hughes JP, Sanchez J, Reid S, Delany-Moretlwe S, Cowan F, Casapia M, Ortiz A, Fuchs J, Buchbinder S, Koblin B, Rose S, Wang J, Corey L, and the HPTN 039 Protocol Team. Twice Daily Acyclovir and HIV-1 Acquisition among HSV-2 Seropositive Women and Men who have sex with Men (MSM): Randomized, Double-blind, Placebo-controlled Trial. Lancet 371:2109-2119, 2008. [PMC2650104]

Sycuro LK, Xi LF, Hughes JP, Feng Q, Winer RL, Lee SK, O'Reilly S, Kiviat NB, Koutsky LA.. Persistence of genital human papillomavirus infection in a long-term follow-up study of female university students. J Infect Dis. 198:971-978, 2008. [PMID: 18694334]

Golden MR, Stekler J, Hughes JP, Woods RW. HIV sersorting in men who have sex with men: Is it safe? JAIDS 49:212 – 218, 2008.[PMID: 18769346]

Baseman JG, Kulasingam SL, Harris TG, Hughes JP, Kiviat NB, Mao C, Koutsky LA. Evaluation of primary cervical cancer screening with an oncogenic human papillomavirus DNA test and cervical cytologic findings among women who attended family planning clinics in the United States. Am J Obstet Gynecol 199:26(1)e1-8, 2008. [PMID: 18313636]

Golden MR, Stekler J, Kent JB, Hughes JP, Woods RW. An evaluation of HIV partner counseling and referral services using new disposition codes. STD 30:95-101, 2009. [PMID: 19131906]

Bernabe-Ortiz A, Gonzales MA, White PJ, Carcamo CJ, Hughes JP, Garcia PJ, Garnett GP, Holmes KK. Clandestine induced abortion in a Latin American country: Incidence, prevalence, and risk factors. CMAJ 180:298-304, 2009. [PMC2630358]

Helms DJ, Weinstock HS, Mahle KC, Bernstein KT, Furness BW, Kent CK, Rietmeijer CA, Shahkolahi AM, Hughes JP, Golden MR. HIV Testing Frequency among MSM Attending STD Clinics: Implications for HIV Prevention and Surveillance. JAIDS 50:320-326, 2009 [PMID: 19194309]

Winer RL, Hughes JP; Feng Q; O'Reilly S, Kiviat NB, Koutsky LA. Comparison of incident cervical and vulvar/vaginal HPV infections in newly sexually active young women. JID 199:815-8, 2009 [PMID: 19183063]

Edelstein ZR, Madeleine MM, Hughes JP, Johnson LG, Schwartz SM, Galloway DA, Carter JJ, Koutsky LA. Age of Diagnosis of Squamous Cell Cervical Carcinoma and Early Sexual Experience. Cancer Epidemiol Biomarkers Prev. 18:1070-6, 2009 [PMC 2667560].

Winer RL, Harris TG, Xi LF, Jansen KU, Hughes JP, Feng Q, Welebob C, Ho J, Lee SK, Carter JJ, Galloway DA, Kiviat NB, Koutsky LA. Quantitative Human Papillomavirus 16 and 18 Levels in Incident Infections and Cervical Lesion Development, J Medical Virology 81:713-21, 2009 [PMC: 3984467]

Rowhani-Rahbar A, Hughes JP, Koutsky LA. Difficulties in estimating the male-to-female sexual transmissibility of human papillomavirus infection. STD 36:261-3, 2009. [PMC: 3480339]

Reid SE, Dai JY, Wang J, Sichalwe BN, Akpomiemie G, Cowan FM, Delany-Moretlwe S, Baeten JM, Hughes JP, Wald A, Celum C. Pregnancy, Contraceptive Use, and HIV Acquisition in HPTN 039: Relevance for HIV Prevention Trials among African Women. JAIDS 52 [PMC: 144620]

Balasubramanian A, Hughes J, Mao C, Ridder R, Herkert M, Kiviat NB, Koutsky LA. Evaluation of an ELISA Assay for p16INK4a as a Screening Test for Cervical Cancer. Cancer Epidemiol Biomarkers Prev. 18:3008-17, 2009.

Menza TW, Hughes JP, Celum CL, Golden MR. Prediction of HIV acquisition among men who have sex with men. Sex Transm Dis. 36:547-55, 2009 [PMC 2753675]

Xi LF, Hughes JP, Edelstein ZR, Kiviat NB, Koutsky LA, Mao C, Ho J, Schiffman M. Human papillomavirus (HPV) type 16 and 18 DNA loads at baseline and persistence of type-specific infection during a 2-year followup. J Infect Dis. 200:1789-97, 2009 [PMC 2783915]

Rowhani-Rahbar A, Mao C, Hughes JP, Alverez FB, Bryan JT, Hawes, SE, Weiss NS, Koutsky LA. Longer term efficacy of a prophylactic monovalent human papillomavirus type 16 vaccine. Vaccine 27(41):5612-9, 2009. [PMC 2749988]

Rowhani-Rahbar A, Carter JJ, Hawes SE, Hughes JP, Weiss NS, Galloway DA, Koutsky LA. Antibody responses in oral fluid following administration of prophylactic human papillomavirus vaccines. J Infect Dis. 200(9):1452-5, 2009. [PMC 3392559]

Sherr KH, Micek MA, Gimbel SO, Gloyd SS, Hughes JP, Joh-Stewart GC, Manjate RM, Pfeiffer J, Weiss NS. Quality of HIV care provided by non-physician clinicians and physicians in Mozambique: a retrospective cohort study. AIDS 24, Suppl 1:S59-66, 2010 [PMC 3372417].

Celum C, Wald A, Lingappa JR, Margaret MA, Wang RA, Mugo N, Mujugira A, Baeten JM, Mullins JI, Hughes JP, Bukusi EA, Cohen CR, Katabira E, Ronald A, Kiarie J, Farquhar C, John-Stewart G, Makhema J, Essex M, Were E, Fife KH, de Bruyn G, Gray GE, McIntyre J, Manongi R, Kapiga S, Coetzee D, Allen S, Inambao M, Kayitenkore K, Karita E, Kanweka W, Delany S, Rees H, Vwalika B, Stevens W, Campbell MS, Thomas KK, Coombs RW, Morrow R, Whittington WLH, McElrath MJ, Barnes L, Ridzon R, Corey L for the Partners in Prevention HSV/HIV Transmission Study Team. Twice-Daily Acyclovir to Reduce HIV-1 Transmission from HIV-1 / HSV-2 Co-infected Persons within HIV-1 Serodiscordant Couples: A Randomized, Double-blind, Placebo-controlled Trial. NEJM 362(5):427-439, 2010. [PMC2838503]

Lingappa JR, Baeten JM, Wald A, Hughes JP, Thomas KK, Mujugira A, Mugo N, Bukusi EA, Cohen CR, Katabira E, Ronald A, Kiarie J, Farquhar C, John-Stewart G, Makhema J, Essex M, Were E, Fife K, de Bruyn G, Gray GE, McIntyre J, Manongi R, Kapiga S, Coetzee D, Allen S, Inambao M, Kayitenkore K, Karita E, Kanweka W, Delany S, Rees H, Vwalika B, Margaret MA, Wang R, Kidoguchi L, Barnes L, Ridzon R, Corey L, Celum C for the Partners in Prevention HSV/HIV Transmission Study Team. Daily Acyclovir to Delay HIV-1 Disease Progression Among HIV-1/HSV-2 Co-Infected Persons: A Randomized Trial. Lancet 375:824-833, 2010. [PMC2877592]

*Burington B, Hughes JP, Whittington W, Stoner B, MD, Garnett G, Aral SO, Holmes KK. Estimating Duration in Partnership Studies: Issues, Methods and Examples. STI 86:84-89, 2010. [PMC3050014]

Balasubramanian A, Kulasingam SL, Baer A, Hughes JP, Myers ER, Mao C, Kiviat NB, Koutsky LA. Accuracy and Cost-Effectiveness of Cervical Cancer Screening by High-Risk HPV DNA Testing of Self-Collected Vaginal Samples. Lower Genital Tract Disease 14:185-195, 2010 [PMC2898894].

Winer RL, Hughes JP, Feng Q, Xi LF, O’Reilly S, Kiviat NB, Koutsky LA. Detection of genital HPV types in fingernail samples collected from newly sexually active female university students. Cancer Epidemiol Biomarkers Prev. 19:1682-1685, 2010 [PMC2901391].

Nelson SJ, Hughes JP, Foxman B, Aral SO, Holmes KK, White PJ, Golden MR. Age- and gender-specific estimates of partnership formation and dissolution rates in the Seattle Sex Survey. Annals of Epidemiology 20:308-317, 2010 [PMC 2838999].

Gomez GB, Campos PE, Buendia C, Carcamo CP, Garcia PJ, Segura P, Whittington WL, Hughes JP, Ward H, Garnett GP, Holmes KK. Studying complex interactions among determinants of healthcare-seeking behaviours: Self-medication for STI symptoms in female sex workers. STI 86:285 – 291, 2010

Kim HN, Wang J, Hughes JP, Coombs R, Sanchez J, Reid S, Delany-Moretlwe S, Cowan F, Fuchs J, Eschleman SH, Khaki L, McMahon MA, Siliciano RF, Wald A, Celum C. Effect of Acyclovir on HIV-1 Viral Set Point among HSV-2 Seropositive Persons During Early HIV-1 Infection. JID 202:734-738, 2010 [PMC 2964878]

Lingappa JR, Hughes JP, Wang RS, Baeten JM, Celum C, Gray GE, Stevens WS, Deborah Donnell D, Campbell MS, Farquhar C, Essex M, Mullins JI, Coombs RW, Rees H, Corey L, Wald A, for the Partners in Prevention HSV/HIV Transmission Study. Estimating the Impact of Plasma HIV-1 RNA Reductions on Heterosexual HIV-1 Transmission Risk. PloS ONE 5(9): e12598, 2010 [PMC 2938354]

Fuchs J, Celum C, Wang J, Hughes JP, Sanchez J, Cowan F, Reid S, Delany-Moretlwe S, Corey L, Wald A. Clinical and virologic efficacy of herpes simplex virus type 2 suppression by acyclovir in a multi-continent clinical trial. JID 201:1164-1168, 2010 [PMC 2856478]

Donnell D, Hughes JP, Fleming TR. Challenges in the design of HIV prevention trials in the United States. JAIDS 55: S136 – S140, 2010. [PMC: 3298818]

Canchihuaman F, Carcamo CP, Garcia PJ, Aral SO, Whittington WLH, Hawes SE, Hughes JP, Holmes KK. Non-monogamy and risk of infection with Chlamydia trachomatis and Trichomonas vaginalis among young adults and their cohabiting partners in Peru. Sex Transm Infect 86:iii37-iii44, 2010.

Menza TW, Jameson DR, Hughes JP, Colfax GN, Shoptaw S, Golden MR. Contingency management to reduce methamphetamine use and sexual risk among men who have sex with men: a randomized controlled trial. BMC Public Health., 10:774, 2010. [PMC 3016390]

Shiely F, Hayes K, Thomas KK, Kerani RP, Hughes JP, Whittington WLH, Holmes KK, Handsfield HH, Hogben M, Golden MR. Expedited partner treatment: A robust intervention? STD, 37:602-607, 2010.

Arima Y, Winer RL, Feng Q, Hughes JP, Lee SK, Stern ME, O'Reilly SF, Koutsky LA. Development of genital warts after incident detection of Human Papillomavirus Infection in young men. JID, 202:1181-1184, 2010.

Mullins JI, Heath L, Hughes JP, Kicha J, Styrchak S, Wong K, Rao U, Hansen A, Harris KS, Laurent JP, Li D, Essigmann JM, Loeb LA, Parkins J. Mutation of HIV-1 genomes in a clinical population treated with the mutagenic nucleoside KP1461. PloS One, 6(1): e15135, 2010. [PMC 3021505]

Sanchez J, Sal Y Rosas G, Hughes JP, Baeten JM, Fuchs J, Buchbinder SP, Koblin BA, Casapia M, Ortiz A, Celum C. Male Circumcision and Risk of HIV Acquisition among Men who have Sex with Men from the United States and Peru: Results from HPTN 039. AIDS, 25:519-524, 2011. [PMC 3120051]

Xi LF, Hughes JP, Castle PE, Edelstein ZR, Wang C,Galloway DA, Koutsky LA, Kiviat NB, Schiffman M. Viral Load in the Natural History of Human Papillomavirus Type 16 Infection: A Nested Case-Control Study. J. Infect. Dis, 203:1425-1433, 2011. [PMC 3080901]

Campbell MS, Mullins JI, Hughes JP, Celum C, Wong KG, Raugi DN, Sorensen S, Stoddard JN, Zhao H, Deng W, Kahle E, Panteleeff D, Baeten JM, McCutchan FE, Albert J, Leitner T, Wald A, Corey L, Lingappa JR for the Partners in Prevention HSV/HIV Transmission Study Team. Viral linkage in HIV-1 seroconverters and their partners in an HIV-1 prevention clinical trial. PloS One 6(3):e16986, 2011. [PMC 3047537]

Winer RL, Hughes JP, Feng Q, Xi LF, Cherne S, O’Reilly S, Kiviat NB, Koutsky LA. Early Natural history of incident type-specific human papillomavirus infections in newly sexually active young women. Cancer Epidemiol Biomarkers Prev, 20:699-707, 2011 [PMC 3078690]

Jacob ST, Baeten JM, Hughes JP, Peinado J, Wang J, Sanchez J, Reid SE, Delany-Moretlwe S, Cowan F, Fuchs JD, Koblin B, Griffith S, Wald A, Celum C. A Post-Trial Assessment of Factors Influencing Study Drug Adherence in a Randomized Biomedical HIV-1 Prevention Trial. AIDS and Behavior, 15:897-904, 2011. [PMC 3076532]

Bernabe-Ortiz A, Carcamo CP, Scott JD, Hughes JP, Garcia PJ, Holmes KK. HBV infection in relation to consistent condom use: A population-based study in Peru. PLoS ONE 6(9): e24721, 2011 [PMC 3172281]

†Eshleman S, Hudelson S, Redd A,Wang L, Debes R, Chen Y,Martens C, Ricklefs S, Selig E,Porcella S, Piwowar-Manning E, McCauleyM, Hosseinipour M, Kumwenda J, Hakim J, Chariyalertsak S, de Bruyn G, Grinsztejn B, Kumarasamy N, Makhema J, Mayer K, Pilotto J, Santos B, Quinn T, Cohen MS, Hughes JP. Analysis of genetic linkage of HIV from couples enrolled in the HIV Prevention Trials Network 052 trial. Journal of Infectious Diseases, 204:1918-1926, 2011. [PMC 3209811]

Lambdin BH, Micek MA, Koepsell TD, Hughes JP, Sherr K, Pfeiffer J, Karagianis M, Lara J, Gloyd SS, Stergachis A. Patient volume, human resource levels, and attrition from HIV treatment programs in central Mozambique. JAIDS, 57:e33-39, 2011.

Vanbuskirk, K, Winer, RL, Hughes, JP, Feng, Q, Arima, Y, Lee, SK, Stern, ME, O’Reilly, SF, Koutsky, LA. Circumcision and acquisition of HPV infection in young men. STD, 38:1074-1081, 2011 [PMC: 3210112]

*Sal y Rosas G, Hughes JP. Nonparametric and Semiparametric Analysis of Current Status Data Subject to Outcome Misclassification. Statist. Comm. Infect. Diseases 3(1): article 7, 2011 [PMC 3298195]

Hughes JP, Dai J. Commentary on Gilbert et al. “A Sequential Phase 2b Trial Design for Evaluating Vaccine Efficacy and Immunological Correlates for Multiple HIV Vaccine Regimens. Statistical Communications Infect. Disease 3(1): article 4, 2011

Baeten JM, Reid SE, Delany-Moretlwe S, Wald A, Hughes JP, Wang R, Wilcox E, Corey L, Celum C. Clinical and Virologic Response to Episodic Acyclovir for Genital Ulcers among HIV-1 Seronegative, HSV-2 Seropositive African Women: A Randomized, Placebo-Controlled Trial Sexually Transmitted Diseases. 39:21-24, 2012 [PMC: 3244838]

Hughes JP, Baeten JM, Lingappa JR, Magaret AS, Wald A, de Bruyn G, Kiarie J, Inambao M, Kilembe W, Farquhar C, Celum C. Determinants of per coital act HIV-1 infectivity among HIV-1 serodiscordant couples. Journal of Infectious Diseases, 205:358-365, 2012.[PMC: 3256946]

Lambdin BH, Micek MA, Koepsell TD, Hughes JP, Sherr K, Pfeiffer J, Karagianis M, Lara J, Gloyd SS, Stergachis A. An assessment of the accuracy and availability of data in electronic patient tracking systems for patients receiving HIV treatment in central Mozambique. BMC Health Services Research 12:30 (2012) [PMC: 3293775]

García PJ, Holmes KK, Cárcamo CP, Garnett GP, Hughes JP, Campos PE, Whittington WLH. The Peru PREVEN Study: A Multicomponent Urban Community-Randomized Trial of STI Prevention. The Lancet 379:1120-1128, 2012 [PMC: 3315635].

Eshleman SH, Hughes JP, Laeyendecker O, Wang J, Brookmeyer R, Johnson-Lewis L, Mullis CE, Hackett J, Vallari AS, Justman J, and Hodder SA. Use of a multi-faceted approach to assess HIV incidence in a cohort study of women in the United States: HIV Prevention Trials Network 064 Study. J Infect Dis., 207:223-231, 2013 [PMC: 3532822].

Rowhani-Rahbar A, Alvarez FB, Bryan JT, Hughes JP, Hawes SE, Weiss NS, Koutsky LA. Evidence of immune memory 8.5 years following administration of a prophylactic human papillomavirus type 16 vaccine. J Clinical Virology 53:239-243, 2012 [PMC: 3279625].

Cárcamo CP, Campos PE, García PJ, Hughes JP, Garnett GP, Holmes KK. Prevalences of Sexually Transmitted Infections in adults and female sex workers in Peru: A national population-based survey. The Lancet Infectious Diseases 12:765-773, 2012. [PMC: 3459082]

Arima Y, Winer RL, Kurth AE, Martin DP, Hughes JP, Stern ME, Feng Q, Kiviat NB, Koutsky LA. Disclosure of genital human papilloma virus infections to female sex partners by young men. STD 39:583-587, 2012. [PMC: 3398400]

Dai JY, Hughes JP. A unified procedure for meta-analytic evaluation of surrogate endpoints in randomized clinical trials. Biostatistics 13:609-624, 2012.[PMC: 3616754]

Lu Y, Celum C, Wald A, Baeten J, Cowan F, Delany-Moretlwe S, Reid S, Hughes J, Wilcox E, Corey L, Hendrix C. Acyclovir Achieves Lower Concentration in African HIV-seronegative, HSV-2 Seropositive Women Compared to Non-African Populations. Antimicrobial Agents and Chemotherapy 56:2777-2779, 2012. [PMC: 3346629]

Murname P, Hughes JP, Celum C, Lingappa JR, Mugo N, Farquhar C, Kiarie J, Wald A, Baeten JM. Using plasma viral load to guide antiretroviral therapy initiation to prevent HIV-1 transmission. PLoS ONE.  Nov; 7(11): e51192. 2012. [PMC: 3511400]

Fu P, Hughes J, Zeng G, Hanook S, Orem J, Mwanda OW, Remick SC. A comparative investigation of methods for longitudinal data with limits of detection through a case study. Statist. Methods in Medical Res. published online 13 April 2012, DOI: 10.1177/0962280212444800

Edelstein Z, Schawartz SM, Hawes S, Hughes JP, Feng Q, Stern ME, O’Reilly S, Lee SK, Xi LF, Koutsky LA. Rates and Determinants of Oral Human Papillomavirus (HPV) Infection in Young Men. STD 39:860-867, 2012.

Winer RL, Hughes JP, Feng Q, Xi LF, Lee SK, O’Reilly S, Kiviat NB, Koutsky, LA. Prevalence and risk factors for oncogenic HPV infections in high-risk mid-adult women. STD 39:848-856, 2012. [PMC: 3476060]

Wolfrum SJ, Koutsky LA, Hughes JP, Feng Q, Xi L, Shen Z, Winer RL. Evaluation of dry and wet transport of at-home self-collected vaginal swabs for human papillomavirus testing. J Med Microbiol 61: 1538-1545, 2012

Hodder SL, Justman J, Hughes JP, Wang J, Haley DF, Adimora AA, Del Rio C, Golin CE, Kuo I, Rompalo A, Soto-Torres L, Mannheimer SB, Johnson-Lewis L, Eshleman SH, El-Sadr WM. HIV Acquisition Among Women from Selected Areas of the United States. Annals Inter. Medicine, 158:10-18, 2013. [PMC: 4033695]

Lingappa J, Thomas KK, Hughes JP, Baeten JM, Wald A, Farquhar C, De Bruyn G, Fife KH, Campbell MS, Kapiga S, Mullins JI, Celum C. Partner characteristics predicting HIV-1 setpoint in sexually acquired HIV-1 among African seroconverters. AIDS Research and Human Retroviruses 29:164-171, 2013. [PMC: 3537302]

Kahle EM, Hughes JP, Lingappa JR, John-Stewart G, Nakku-Joloba E, Njuguna S, Bukusi E, Mungo N, Manongi R, Celum C, Baeten JM. An empiric risk scoring tool for identifying high-risk heterosexual HIV-1 serodiscordant couples for targeted HIV-1 prevention. JAIDS, 62:339-347, 2013. [PMC: 3620695]

Broad JM, Manhart LE, Kerani RP, Scholes D, Hughes JP, Golden MR. Chlamydia screening coverage estimates derived using healthcare effectiveness data and information system procedures and indirect estimation vary substantially. STD 40:292-297, 2013 [PMC: pending]

Dai JY, Gilbert P, Hughes JP, Brown E. Estimating the efficacy of preexposure prophylaxis for HIV prevention among participants with a threshold level of drug concentration. American J Epidemiology 177:256-263, 2013. [PMC: 3577049]

Alsallaq R, Baeten JM, Celum C, Hughes JP, Abu-Raddad LJ, Barnabas RV, Hallett TB. Understanding the Potential Impact of a Combination HIV Prevention Intervention in a Hyper-Endemic Community. PLOS ONE 8(1):e54575, 2013. [PMC: 3553021]

Manhart L, Gillespie CW, Lowens MS, Khosropour CM, Colombra DV, Golden MR, Hakhu NR, Thomas KK, Hughes JP, Jensen NL, Totten PA. Standard treatment regimens for nongonococcal urethritis have similar but declining cure rates: a randomized controlled trial. Clinical Infectious Diseases 56:934-942, 2013. [PMC: 3588116]

Donnell D, Hughes JP, Wang L, Chen YQ, Fleming TR. Study Design Considerations for Evaluating Efficacy of Systemic Pre-Exposure Prophylaxis Interventions. JAIDS 63:S130-S134, 2013. [PMC: 3725298]

Celum C, Baeten JM, HughesJP, Barnabas R, Liu A, Van Rooyen H, Buchbinder S. Integrated strategies for combination HIV prevention: Principles and examples for men who have sex with men in the Americas and heterosexual African populations. JAIDS 63:S213—S220, 2013. [PMC: 3708491]

Van Rooyen H, Barnabas RV, Baeten JM, Phakathiz, Joseph P, Krows M, Hong T, Hughes J, Celum C. High HIV testing uptake and linkage to care in a novel program of home‐based HIV counseling and testing with facilitated referral in KwaZulu-Natal, South Africa. JAIDS 64: e1-8, 2013 [PMC: 3744613]

Hanisch RA, Sow PS, Toure M, Dem A, Dembele B, Toure P, Winer RL, Hughes JP, Gottlieb GS, Feng Q, Kiviat NB, Hawes SE for the University of Washington-Dakar HIV and Cervical Cancer Study Group. Influence of HIV-1 and/or HIV-2 infection and CD4 count on cervical HPV DNA detection in women from Senegal, West Africa. J. Clinical Virology, 58(4):696-702, 2013. [PMC 4059498]

Haley DF, Lucas JP, Golin CE, Wang J, Hughes JP, Emel L, El-Sadr W, Frew P, Justman J, Adimora A, Watson CC, Mannheimer S, Rompalo A, Soto-Torres L, Tims-Cook Z, Hodder SL, on behalf of the HPTN 064 Study Team. Retention Strategies and Factors Associated with Missed Visits Among Low Income Women at Increased Risk of HIV Acquisition in the US (HPTN 064) AIDS Patient Care 28:206-217, 2014 [PMC: 3985524].

Baisley K, Baeten J, Hughes J, Donnell D, Wang J, Hayes R, Watson-Jones D, Celum C. Summary measures of adherence using pill counts in two HIV prevention trials: the need for standardisation in reporting. AIDS and Behavior 17:3108-3119, 2013 [PMC: 3812335].

Haley DF, Golin C, El-Sadr W, Hughes JP, Wang J, Roman Isler M, Mannheimer S, Kuo I, Lucas J, DiNenno E, Justman J, Frew PM, Emel L, Rompalo A, Polk S, Adimora A, Rodriquez L, Soto-Torres L, and Hodder S, on behalf of the HPTN 064 Study Team. Venue-based Recruitment of Women at Elevated Risk for HIV in the United States (HPTN 064). J. Women’s Health 23:541-551, 2014 [PMC: 4046355]

Kuo I, Golin CE, Wang J, Haley DF, Hughes J, Mannheimer S, Justman J, Rompalo A, Frew PM, Adimora AA, Soto-Torres L, Hodder S. Substance Use Patterns and Factors Associated with Changes Over Time in a Cohort of Heterosexual Women At Risk for HIV Acquisition in the United States. Drug and Alcohol Dependence 139:93-99, 2014 [PMC: 4104540]

Adimora AA, Hughes JP, Wang J, Haley DF, Golin CE, Magnus M, Rompalo A, Justman J, del Rio C, El-Sadr W, Mannheimer S, Soto-Torres L, Hodder S. Characteristics of multiple and concurrent partnerships among woman at high risk for HIV infection. JAIDS.65:99-106, 2014 [PMC 4172374]

Winer RL, Xi LF, Shen Z, Stern JE, Newman L, Feng Q, Hughes JP, Koutsky LA. Viral load and short-term natural history of type-specific oncogenic human papillomavirus infections in a high-risk cohort of mid-adult women. Int J Cancer.134:1889-1898, 2014. [PMC 3947429]

Hanisch RA, Cherne SL, Sow PS, Winer RL, Hughes JP, Feng Q, Gottlieb GS, Toure M, Dem A, Kiviat NB, Hawes. Human papillomavirus type 16 viral load in relation to HIV infection, cervical neoplasia and cancer in Senegal. Cancer Epidemiology 38:369-375, 2014.

Xi LF, Schiffman M, Koutsky L, Hughes J, Winer R, Mao C, Hulbert A, Lee SK, Shen Z, Kiviat N. Lineages of oncogenic human papillomavirus types other than type 16 and 18 and risk for cervical intraepithelial neoplasia JNCI 106(10), 2014 [PMC: 4168311]

Golden MR, Kerani RP, Stenger M, Hughes JP, Aubin M, Malinski C, Holmes KK. Uptake and Population-Level Impact of Expedited Partner Therapy (EPT) on Chlamydia trachomatis and Neisseria gonorrhoeae: The Washington State Community-level Randomized Trial of EPT. PLoS Medicine 12(1):e1001777, 2015. [PMC 4295847]

Rosenberg M, Pettifor A, Lippman S, Thirumurthy H, Emch M, Miller W, Selin A, Gomez-Olive F, Twine R, Hughes J, Laeyendecker O, Tollman S, Kahn K. Relationship between community-level alcohol outlet accessibility and individual-level HSV-2 infection among young women in South Africa. Sex Transm Dis. 42(5): 259-265.

Jennings L, Rompalo AM, Wang J, Hughes J, Adimora AA, Hodder S, Soto-Torres LE, Frew PM, Haley DF. Prevalence and correlates of knowledge of male partner HIV testing and serostatus among African-American women living in high poverty, high HIV prevalence communities (HPTN 064). AIDS and Behavior 19:291-301, 2015.

Barnabus RV, van Rooyen H, Tumwesigye E, Murnane PM, Baeten JM, Humphries H, Turyammureeba B, Joseph P, Krows M, Hughes JP, Celum C. Initiation of antiretroviral therapy and viral suppression after home HIV testing and counselling in KwaZulu-Natal, South Africa, and Mbarara district, Uganda: a prospective, observational intervention study. The Lancet HIV 1:e68-e76, 2014. [PMC4292844]

Mackelprang RD, Carrington M, Thomas K, Hughes JP, Baeten J, Wald A, Farquhar C, Fife K, Campbell MS, Kapiga S, Gao X, Mullins JI, Lingappa JR. Host genetic and viral determinants of HIV-1 RNA set-point among HIV-1 seroconverters from sub-Saharan Africa. J Virology.89:2104-2011, 2015. [PMC4338863]

Rosenburg M, Pettifor A, Van Rie A, Thirumurthy H, Emch M, Miller WC, Gómez-Olivé FX, Twine R, Hughes J, Laeyendecker O, Selin A, Kahn K. The relationship between alcohol outlets, HIV risk behavior, and HSV-2 infection among South African young women: A cross-sectional study. PLoS ONE 10(5):e0125510, 2015 [PMC 4425652]

Hughes JP, Haley DF, Frew PM, Golin CE, Adimora AA, Kuo I, Justman J, Soto-Torres L, Wang J, Hodder S. Regression to the mean and changes in Risk Behavior following Study Enrollment in a Cohort of US Women at Risk for HIV. Annals of Epidemiology 25:439-44, 2015 [PMC: 4433583]]

Barrere, A, Stern JE, Feng Q, Hughes JP, Winer RL. Oncogenic human papillomavirus (HPV) infections in 18 to 24 year old female online daters. Sexually Transmitted Infections, 42:492-497, 2015 [PMC4596246]

Wagenaar BH, Cumbe V, Raunig-Berho M, Rao D, Napúa M, Hughes JP, Sherr K. Health facility determinants and trends of ICD-10 outpatient psychiatric consultations across Sofala, Mozambique: time-series analyses from 2012 to 2014. BMC Psychiatry,15:227, 2015 [PMC4581480]

Nguyen NL, Powers KA, Hughes JP, MacPhail CL, Piwowar-Manning E, Patel E, Gomez-Olive X, Kahn K, Pettifor A. Sexual partnership patterns among South African adolescent girls enrolled in STI Preventions Trial Network 068: Measurement challenges and implications for HIV/STI transmission. Sexually Transmitted Diseases 42:612-618, 2015 [PMC4608257]

Montgomery BE, Rompalo AM, Hughes J, Wang J, Haley D, Soto-Torres L, Chege W, Justman JE, Kuo I, Golin C, Frew P, Mannheimer S, and Hodder SL Violence Against Women in Selected Areas of the United States American Journal of Public Health 105:2156-2166, 2015 [PMC4566563]

Chen I, Clarke W, Ou SS, Marzinke MA, Breaud A, Emel LM, Wang J, Hughes JP, Richardson P, Haley DF, Lucas J, Rompalo A, Justman JE, Hodder SL, Eshleman SH. Antiretroviral drug use in a cohort of HIV-uninfected women in the United States: HIV Prevention Trials Network 064. PLoS ONE 10(10):e0140074, 2015 [PMC4596522]

Colombara DV, Manhart LE, Carter JJ, Hawes SE, Weiss NS, Hughes JP, Barnett MJ, Goodman GE, Qiao YL, Smith JS, Galloway DA. Prior Human Polyomavirus and Papillomavirus Infection and Incident Lung Cancer: A Nested Case-Control Study. Cancer Causes and Control 26:1835-1844, 2015 [PMC4628600]

Colombara DV, Hughes JP, Burnett-Hartman AN, Hawes SE, Galloway DA,. Schwartz SM, Potter JD, Bostick RM, Manhart LE. Analysis of Liquid Bead Microarray Antibody Assay Data for Epidemiologic Studies of Pathogen-Cancer Associations. J Immunological Methods425:45-50, 2015 [PMC4604026]

Fu TC, Xi LF, Hulbert A, Hughes JP, Feng Q, Schwartz SM, Hawes SE, Koutsky LA, Winer RL. Short-term Natural History of High-Risk Human Papillomavirus Infection in Mid-Adult Women Sampled Monthly. International J of Cancer 137:2432-2442, 2015 [PMC4591913]

Fu T, Hughes JP, Feng Q, Hulbert A, Hawes SE, Xi LF, Schwartz SM, Koutsky LA, Winer RL. Epidemiology of Human Papillomavirus (HPV) Detected in the Oral Cavity and Fingernails of Mid-Adult Women. STD, 42:677-685, 2015 [PMC4646722]

Justman J, Befus M, Hughes J, Wang J, Golin CE, Adimora AA, Kuo I, Haley DF, del Rio C, El-Sadr WM, Rompalo A, Mannheimer S, Soto-Torres L, Hodder S. Sexual behaviors of US women at risk of HIV acquisition: A longitudinal analysis of findings from HPTN 064. AIDS and Behavior 19:1327-1337, 2015. [PMC: 4506244]

Roman-Isler M, Golin C, Wang J, Hughes J, Justman J, Haley D, Kuo I, Adimora A, Chege W, Hodder S. Venues for Meeting Sex Partners and Partner HIV Risk Characteristics: HIV Prevention Trials Network (HPTN064) Women's HIV Seroincidence Study (ISIS). AIDS and Behavior 20:1208-1218, 2016. [PMC: ]

Hughes JP, Granston TS, Heagerty PJ. On the design and analysis of stepped wedge trials. Contemporary Clinical Trials. 45(Pt A):55-60, 2015. [PMC4639463]

Xu D, Gong W, Caine E, Xiao S, Hughes JP, Mg M, Simoni J, He H, Smith KL, Brown HS, Gloyd S. Lay health supporters aided by a mobile phone messaging system to improve care of villagers with schizophrenia in Liuyang, China: Protocol for a randomized control trial. BMJ Open 6:1 e010120, 2016. [PMC4735204]

Magidson JF, Li X, Moore AT, Srithanaviboonchai K, Friedman RK, Limbada M, Hughes JP, Cummings V, Gaydos CA, Elharrar V, Celentano D, Mayer KH, Safren SA. Antiretroviral Medication Adherence and Amplified HIV Transmission Risk among Sexually Active HIV-Infected Individuals in Three Diverse International Settings. AIDS and Behavior 20:699-709, 2016. [PMC: 4744579]

Bosire R, Beta B, Aluisio A, Hughes JP, Nduti RW, Kiarie JN, Chohan B, Merkel M, Lohman-Payne B, John-Stewart GC, Farquhar C. High rates of Exclusive Breastfeeding (EBF) in Both Arms of a Study Assessing Peer Counseling to Promote EBF among HIV-infected Kenyan Women. Breastfeeding Medicine 11:56-63, 2016. [PMC: 4782034]

Magaret AS, Mujugira A, Hughes JP, Lingappa J, Bukusi EA, DeBruyn G, Delany-Moretlwe S, Fife KH, Gray GE, Kapiga S, Karita E, Mugo NR, Rees H, Ronald A, Vwalika B, Were E, Celum C, Wald A. Effect of condom use on per-act HSV-2 transmission risk in HIV-1, HSV-2-discordant couples. Clinical Infectious Diseases 62:456-61, 2016. [PMC: 4725379]

Barnabus RV, van Rooyen H, Tumwesigye E, Brantley J, Baeten JM, van Heerden A, , Turyammureeba B, Joseph P, Krows M, Thomas KK, Schaafsma TT, Hughes JP, Celum C. Uptake of antiretroviral therapy and male circumcision after community-based HIV testing and strategies for linkage to care versus standard clinic referral: a multisite, open-label, randomised controlled trial in South Africa and Uganda. Lancet HIV 3(5):e212-220, 2016. [PMC: 4852382]

Hughes JP, Emel L, Hanscom B, Zangeneh S. Design Issues in HIV Prevention Studies for Transgender People. JAIDS 72 Suppl 3:S248-251, 2016 [PMC: 4955862]

Colombara DV, Manhart LE, Carter JJ, Hawes SE, Weiss NS, Hughes JP, Qiao YL, Taylor PR, Smith JS, Galloway DA. Absence of an Association of Human Polyomavirus and Papillomavirus Infection with Lung Cancer in China: A Nested Case-Control Study. BMC Cancer, 16(1):342, 2016 [PMC: 4888628]

Ying R, Sharma M, Celum C, Baeten JM, van Rooyen H, Hughes JP, Garnett G, Barnabus RV. Home HIV testing and counseling, with and without viral load measurement, cost-effectively reduces HIV incidence in a generalized epidemic setting: a mathematical modeling analysis. Lancet HIV, 3(6):e275-282, 2016 [PMC: 4927306]

Golin CE, Haley DF, Wang J, Hughes JP, Kuo I, Justman J, Adimra AA, Soto-Torres L, O’Leary A, Hodder S. Post-traumatic stress disorder symptoms and mental health over time among low-income women at increased risk of HIV in the US. J. Health Care for the Poor and Underserved, 27:891-910, 2016

Xi LF, Schiffman M, Koutsky LA, Hughes JP, Hulbert A, Shen Z, Galloway DA, Kiviat NB. Variant-Specific Persistence of Infections with Oncogenic Human Papillomavirus Types Other Than Type 16 and 18 and Risk of Cervical Intraepithelial Neoplasia. International J Cancer, 139: 1098-1105, 2016 [PMC: 4911294]

Ritchwood T, Hughes JP, Jennings L, MacPhail C, Williamson B, Selin A, Kahn K, Gomez-Olive FX, Pettifor A. JAIDS 72:423-429, 2016 [PMC: 4925181]

Khosropour C, Dombrowski JC, Swanson F, Kerani RP, Katz DA, Barbee LA, Hughes JP, Manhart LE, Golden MR. Trends in serosorting and the association with HIV/STI risk over time among men who have sex with men (MSM). JAIDS 72:189-197, 2016 [PMC: 4866874]

Barnabas RV, Baeten JM, Lingappa JR, Thomas KK, Hughes JP, Mugo NR, Delany-Moretlwe S, Gray G, Rees H, Mujugira A, Ronald A, Stevens W, Kapiga S, Wald A, Celum C. Acyclovir prophylaxis reduces the incidence of herpes zoster among HIV-infected individuals: Results of a randomized clinical trial J Infectious Diseases 213:551-555, 2016. [PMC: 4721901]

Kohler PK, Campos PE, Garcia PJ, Carcamo CP, Buendia C, Hughes JP, Mejia C, Garnett GP, Holmes KK. STI Screening Uptake and Knowledge of STI Symptoms among Female Sex Workers Participating in a Community Randomized Trial in Peru. International J of STD and AIDS 27:402-410, 2016.[PMC: 4742423]

Ranganathan M, Heise L, Pettifor A, Silverwood RJ, Selin A, MacPhail C, Delany-Moretlwe S, Kahn K, Gómez-Olivé FX, Hughes JP, Piwowar-Manning E, Laeyendecker O, Watts C. Transactional sex among young women in rural South Africa: Prevalence, mediators and association with HIV infection. JAIDS 19(1):20749, 2016 [PMC: 4965597]

Winer RL, Hughes JP, Feng Q, Stern JE, Xi LF, Koutsky LA. Incident detection of high-risk human papillomavirus infections in a cohort of high-risk mid-adult women. JID 214:665-675, 2016. [PMC: 4978366]

Pettifor A, MacPhail C, Selin A, Gómez-Olivé FX, Rosenberg M, Wagner RG, Mabuza W, Hughes JP, Chirayath S, Piwowar-Manning E, Daniel T, Twine R, Andrew P, Wang J, Agyei Y, Tollman S, Kahn K. HPTN 068: A randomized control trial of a conditional cash transfer to reduce HIV infection in young women in South Africa – Study design and baseline results. AIDS and Behavior.20:1863-1882, 2016 [PMC: 4990514]

*Norwood MS, Hughes JP, Amico KR. The Validity of Self-Reported Behaviors: Methods for Estimating Underreporting of Risk Behaviors. Annals of Epidemiology, 26:612-618, 2016. [PMC: 5035638]

Khosropour C, Dombrowski JC, Hughes JP, Manhart LE, Golden MR. Evaluation of a computer-based recruitment system to enroll men who have sex with men (MSM) into an observational HIV behavioral risk study. American J Epidemiology.184:477-483, 2016 [PMC: 5023791]

Wilson K, Wanje G, Yuhas K, Simoni JM, Masese L, Vander Stoep A, Jaoko W, Hughes JP, Richardson R, McClelland RS. A prospective study of intimate partner violence as a risk factor for detectable plasma viral load in HIV-positive women engaged in transactional sex in Mombasa, Kenya. AIDS and Behavior.20:2065-2077, 2016 [PMC: 4996676]

Wilson KS, Deya R, Yuhas K, Simoni JM, Vander Stoep A, Shafi J, Jaoko W, Hughes JP, Richardson R, McClelland RS. A prospective cohort study of intimate partner violence and unprotected sex in HIV-positive female sex workers in Mombasa, Kenya. AIDS and Behavior.20:2054-2064, 2016 [PMC: pending]

Fu TC, Carter JJ, Hughes JP, Feng Q, Hawes SE, Schwartz SM, Xi LF, Lasof T, Stern JE, Galloway DA, Koutsky LA, Winer RL. Re-Detection versus New Acquisition of High-Risk Human Papillomavirus in Mid-Adult Women. International J Cancer 139:2201-2212, 2016 [PMC: pending]

Safren SA, Hughes JP, Mimiaga MJ, Moore AT, Friedman RK, Srithanaviboonchai, K, Limbada M, Williamson B, Elharrar V, Cummings V, Magidson JF, Gaydos CA, Celentano D, Mayer KH for the HPTN063 Study Team. Frequency and predictors of estimated HIV transmissions and bacterial STI acquisition among HIV-infected patients in HIV care across three continents. Journal of the International AIDS Society 19(1):21096, 2016 [PMC: 5043092]

Pettifor A, MacPhail C, Hughes JP, Selin A, Wang J, Gomez-Olive FG, Eshleman SH, Wagner RG, Mabuza W, Khoza N, Suchindran C, Mokoena I, Twine R, Andrew P, Townley E, Laeyendecker O, Agyei Y, Tollman S, Kahn K. The effect of a conditional cash transfer on HIV incidence in young women in rural South Africa (HPTN 068): a phase 3, randomized trial. Lancet Global Health 4:e978-e988, 2016 [PMC: pending]

Wilson KS, Deya R, Masese L, Simoni JM, Vander Stoep A, Shafi J, Jaoko W, Hughes JP, McClelland RS. Prevalence and correlates of intimate partner violence in high-risk HIV-positive women engaged in transactional sex in Mombasa, Kenya. Int J STD and AIDS 27:1194-1203, 2016 [PMC: 4829471]

Asbjornsdottir KH, Hughes JP, Wamalwa D, Langot A, Slyker JA, Okinyi HM, Overbaugh J, Benki-Nugent S, Tapia K, Maleche-Obimbo E, Rowhani-Rahbar A, John-Stewart G. Differences in virologic and immunologic response to antiretroviral therapy among HIV-1 infected infants and children. AIDS 30:2835 – 2843, 2016 [PMC: 5101154]

Wagner AD, Mugo C, Njuguna IN, Maleche-Obimbo E, Sherr K, Inwani IW, Hughes JP, Wamalwa DC, John-Stewart GC, Slyker JA. Implementation and Operational Research: Active Referral of Children of HIV-Positive Adults Reveals High Prevalence of Undiagnosed HIV. JAIDS 73:e83-e89, 2016 [PMC: 5175406]

Eshleman SH, Hudelson SE, Redd AD, Swanstrom R, Ou S, Zhang XC, Ping LH, Piwowar-Manning E, Porcella SF, Sivers MF, Martens CA, Bruno D, Dukhovlinova E, McCauley M, Gamble T, Sabin D, Quinn TC, Gunde L, Maliwichi M, Nhando N, Akelo V, Moyo S, Panchia R, Kumarasamy N, Chotirosniramit N, Goncalves de Melo M, Piotto J, Grinsztejn B, Mayer K, Chen YQ, Hughes JP, Cohen M. Treatment as Prevention: Characterization of partner infections in the HIV Prevention Trials Network 052 trial. JID 74:112-116, 2017 [PMC: 5140698].

Jennings L, Pettifor A, Hamilton E, Ritchwood TD, Gomez-Olive X, MacPhail C, Hughes J, Selin A, Kahn K. Economic resources and HIV preventive behaviors among school-enrolled young women in rural South Africa (HPTN 068). AIDS and Behavior 21:665-677, 2017 [PMC: 5136342].

Sivay MV, Li M, Piwowar-Manning E, Yinfeng Z, Hudelson S, Marzinke M, Amico RK, Redd A, Hendrix C, Andeson PL, Bokoch K, Gail-Bekker L, van Griensven F, Mannheimer S, Hughes JP, Grant R, Eshlemann SH. Characterization of HIV seroconverters in a TDV/FTC PrEP study: HPTN 067/ADAPT. JAIDS, 75:271 – 279, 2017 [PMC: 5472493].

*Lyons V, Li L, Hughes JP, Rowhani-Rahbar A. Proposed Variations of the Stepped Wedge Design can be Employed to Accommodate Multiple Interventions. Journal of Clinical Epidemiology 86:160-167. 2017 [PMC: 5835387]

Stoner MCD, Pettifor A, Edwards JK, Aiello AE, Halpern CT, Julien A, Selin A, Twine R, Hughes JP, Wang J, Agyei Y, Gomez-Olive FX, Wagner RW, MacPhail C, Kahn K. The effect of school attendance and school dropout on incident HIV and HSV-2 among young women in rural South Africa enrolled in HPTN 068. AIDS 31:2127-2134, 2017 [PMC:5599334]

Ma S, Stern JE, Feng Q, Hughes JP, Hawes SE, Winter RL. Incidence and Risk Factors for Human Papillomavirus Infections in Young Female Online Daters. J Medical Virology, 89:2029-2036, 2017 [PMC:5603403]

Lokken E, Balkus JE, Kiarie J, Hughes JP, Jaoko W, Totten PA, McClelland RS, Manhart LE. Association of ecent bacterial vaginosis is associated with acquisition of Mycoplasma genitalium, American J Epidemiology 186:194-201, 2017 [PMC:pending]

Xi LF, Schiffman M, Ke Y, Hughes JP, Galloway DG, He Z, Hulbert A, Winer RL, Koutsky LA, Kiviat NB. Type-Dependent Association between Risk of Cervical Intraepithelial Neoplasia and Viral Load of Oncogenic Human Papillomavirus Types Other than Types 16 and 18. Int. J Cancer 140:1747-1756, 2017. [PMC: pending]

Golden MR, Hughes JP, Dombrowski J. Optimizing the Timing of HIV Screening as Part of Routine Medical Care. AIDS Patient Care and STDs 31:27-32, 2017 [PMC: 5220561]

Hood JE; Golden MR, Hughes JP, Goodreau SM, Siddiqi AEA, Buskin SE, Hawes SE. Projected Demographic Composition of the United States Population of People Living with Diagnosed HIV. AIDS Care, 29:1543 - 1550, 2017.

Khosropour CM, Bell TR, Hughes JP, Manhart LE, Golden MR. A population-based study to compare treatment outcomes among women with urogenital chlamydial infection in Washington State, 1992-2015. Sex Transm Dis 45:319-324, 2018 [PMC:5895502]

Halloran ME, Auranen K, Baird S, Basta NE, Bellan S, Brookmeyer R, Cooper B, DeGruttola V, Hughes J, Lessler J, Lofgren ET, Longini IM, Onnela JP, Ozler B, Seage G, Simulations for Designing and Interpreting Intervention Trials in Infectious Diseases. BMC Med. 15(1):223, 2017 [PMC: 5747936]

Stoner MCD, Edwards JK, Aiello AE, Halpern CT, Julien A, Selin A, Hughes JP, Wang J, Agyei Y, Gomez-Olive FX, Wagner RW, MacPhail C, Kahn K, Pettifor A,. The effect of schooling on age-disparate relationships and number of sexual partners among young women in rural South Africa enrolled in HPTN 068. JAIDS 76:e107-e114, 2017 [PMC: 5680112]

Khosropour C, Dombrowski JC, Hughes JP, Manhart LE, Simoni JM, Golden MR. Operationalizing the measurement of seroadaptive behaviors: a comparison of reported sexual behaviors and purposely-adopted behaviors among men who have sex with men (MSM) in Seattle. AIDS and Behav. 21:2935-2944, 2017 [PMC: 5513799]

Shapiro AE, van Heerden A, Schaafsma TT, Hughes JP, Baeten JM. Completion of the Tuberculosis Care Cascade in a Community-based HIV Linkage-to-Care Study in South Africa and Uganda. JIAS 21:e25065, 2018 [PMC: 5810338].

Means A, van Lieshout L, Brienen E, Yuhas K, Hughes JP, Naulikha J, Ndungu P, Singa B, Walson J. Combined effectiveness of anthelmintic chemotherapy and WASH among HIV-infected adults.. PLoS NTDs 12:e0005955, 2018 [PMC: 5773082]

Bekker LG, Roux S, Yola N, Amico RK, Hughes JP, Marzinke MA, Hendrix CW, Anderson PL, Elharrar V, Stirratt M, Piwower-Manning E, Eshelman SA, Rooney J, McKinstry L, Li M, Dye BJ, Grant RM. Daily and non-daily pre exposure prophylaxis in African women (HPTN 067/ADAPT Cape Town Trial): a randomized, open label, phase 2 trial.. Lancet HIV 5:e68-e78, 2018

Kilburn KN, Pettifor A, Edwards J Selin A, MacPhail C, Wagner R, Hughes JP, Wang J, Kahn K. Conditional cash transfers and the reduction of partner violence for young women: An investigation of causal pathways using evidence from a randomized experiment in South Africa (HPTN 068). J International AIDS Society.21 (S1):e25043, 2018 [PMC:5978692]

Rosenberg M, Pettfor A, Twine R, Hughes JP, Xavier Gomez-Olive F, Wagner RG, Sulaimon A, Tollman S, Selin A, Macphail C, Kahn K. Evidence for sample selection effect and Hawthorne effect in behavioral HIV prevention among young women in a rural South African community. BMJ Open 8:e019167, 2018 [PMC: 5781067]

Mitchell KM, Dimitrov D, Hughes JP, Xia F, Donnell D, Amico KR, Bokoch K, Chitwarakorn A, Bekker LG, Holtz TH, Mannheimer S, Grant RM, Boily MC. In What Circumstances Could Non-daily Pre-exposure Prophylaxis for HIV Substantially Reduce Program Costs? A HPTN 067/ADAPT based study. AIDS 32:809-818, 2018 [PMC: 5854532]

Thomson K, Hughes JP, Baeten JM, John-Stewart G, Celum C, Hendrix CR, Ngure K, Kiarie J, Mugo N, Heffron R. Increased Risk of HIV Acquisition Among Women Throughout Pregnancy and During the Postpartum Period: A Prospective Per-Coital-Act Analysis Among Women With HIV-Infected Partners. Journal Inf. Diseases 218:16-25, 2018 [PMC: 5989601]

Figueroa DB, Tillotson J, Li M, Piwowar-Manning E, Hendrix C, Holtz T, Bokoch K, Becker LG, van Griensven F, Mannheimer S, Hughes JP, Grant R, Bumpus NN. Discovery of Genetic Variants of the Kinases that Activate Tenofovir among Individuals in the United States, Thailand and South Africa. PLoS ONE 13(4):e0195764, 2018 [PMC: 5895070]

Dombrowski JC, Hughes JP, Buskin SE, Bennett A, Katz D, Fleming M, Nunez A, Golden MR. A Cluster Randomized Trial of a Population-Based HIV Surveillance-Guided Outreach Intervention to Increase Engagement in HIV Care and Antiretroviral Use. STD 45:361-367, 2018 [PMC: 5948114]

Ross JM, Ying R, Celum CL, Baeten JL, Lingappa JL, Thomas KK, Murnane P, Krows M, van Rooyen H, Hughes JP, Barnabas RV. Modeling HIV disease progression and transmission at population-level: The potential impact of adding valacyclovir to HIV treatment programs. Epidemics23:34 – 41, 2018 [PMC: 5975109]

Rosenberg M, Pettifor A, Duta M, Demeyere N, Wagner RG, Selen A, Macphail C, Laeyendecker O, Hughes JP, Stein A, Tollman S, Kahn K. Executive function associated with sexual risk in young South African women: Findings from the HPTN 068 cohort. PLoS ONE 13(4):e0195217, 2018 [PMC: 5880379].

Grant RM, Mannheimer S, Hughes JP, Hirsch-Moverman Y, Loquere A, Chitwarakorn A, Curlin ME, Li M, Amico KR, Hendrix C, Anderson P, Dye BJ, Piwowar-Manning E, McKinstry L, Elharrar V, Stirrat M, Rooney JF, Eshleman SH, McNicholl J, van Griensven F, Holtz TH. Daily and Non-daily Oral Pre-exposure Prophylaxis in Men, and Transgender Women, Who Have Sex with Men: HPTN 067/ADAPT. CID 66:1712-1721, 2018 [PMC: 5961078]

Katz DA, Golden MR, Hughes JP, Farquhar C, Stekler JD. HIV Self-Testing Increases HIV Testing Frequency among High Risk Men Who Have Sex with Men: A Randomized Controlled Trial. JAIDS 78:505-512, 2018 [PMC: 6037557]

Kilburn K, Ranganathan M, Stoner MCD, Hughes JP, MacPhail C, Agyei Y, Gomez-Olive X, Kahn K, Pettifor A. Transactional sex and incident HIV infection in a cohort of young women from rural South Africa enrolled in HPTN 068 AIDS 32:1669-1677, 2018 [PMC: 6082595]

Hood JE, Bradley H, Hughes JP, Golden MR, Crane HM, Buskin SE, Burkholder G, Geng E, Kitahata MM, Matthews WC, Moore RD, Hawes SE. Reconciling the Evaluation of Co-Morbidities among HIV Care Patients in Two Large Data Systems: the Medical Monitoring Project and CFAR Network of Integrated Clinical Systems. AIDS Care 30:1551-1559, 2018.

Odeny TA, Bukusi EA, Geng EH, Hughes JP, Holmes KK, McClelland RS. Participation in a clinical trial of a text messaging intervention is associated with increased infant HIV testing: A parallel-cohort randomized controlled trial. PLOS ONE 13(12): e0209854, 2018. [PMC: 6312205]

Stoner MCD, Edwards JK, Miller WC, Aiello AE, Halpern CT, Julien A, Rucinski KB, Selin A, Twine R, Hughes JP, Wang J, Agyei Y, Gomez-Olive FX, Wagner RG, Laeyendecker O, MacPhail C, Kahn K, Pettifor A. Does Partner Selection Mediate the Relationship Between School Attendance and HIV/Herpes Simplex Virus-2 Among Adolescent Girls and Young Women in South Africa: An Analysis of HIV Prevention Trials Network 068 Data. JAIDS 79:20-27, 2018 [PMC:6092209].

Sivay MV, Fogel JM, Wang J, Zhang Y, Piwowar-Manning E, Clarke W, Breaud A, Blankson J, Hamilton EL, Kahn K, Selin A, Gomez-Olive FX, MacPhail C, Hughes JP, Pettifor A, Eshleman SH. Natural control of HIV infection in young women in South Africa: HPTN 068. HIV Clinical Trials 19:202-208, 2018.

Zhang Y, Sivay M, Hudelson SE< Clarke W, Breaud A, Wang J, Pinowar-Manning E, Agyei Y, Fogel JM, Hamilton EL, Selin A, MacPhail C, HKahn K, Gomez-Olive FX, Hughes JP, Pettifor A, Eshleman SH. Antiretroviral drug use and HIV drug resistance among young women in South Africa: HPTN 068​. JAIDS 79:315-322, 2018 [PMC: 6185777]

Sivay M, Hudelson SE, Wang J, Agyei Y, Hamilton E, Selin A, Denis A, Kahn K, Gomez-Olive X, MacPhail C, Hughes JP, Pettifor A, Eshleman SH, and Grabowski MK. HIV diversity among young women in rural South Africa: HPTN 068 PLoS ONE 13(7): e0198999, 2018 [PMC: 6033411].

Montgomery BEE, Frew PM, Hughes JP, Wang J, Adimora AA, Haley DF, Kuo I, Jennings L, El-Bassell N, Hodder SL. HIV Risk Characteristics Associated with Violence Against Women: A Longitudinal Study Among Women in the United States. J of Women’s Health 27:1317-1326, 2018 [PMC: 6247378].

Xu DR, Gong W, Gloyd S, Caine ED, Simoni J, Hughes JP, Xiao S, He W, Dai B, Lin M, Nie J, He H. Measuring adherence to antipsychotic medications for schizophrenia: Concordance and validity among a community sample in rural China. Schizophr Res. 201:307-314, 2018 [PMC: 6252110].

Eisenberg AL, Patel E, Packman Z, Fernandez R, Piwowar-Manning E, Agyei Y, Hamilton EL, Wang J, Kahn K, Selin A, Gomez-Olive FX, MacPhail C, Hughes JP, Pettifor A, Pilcher C, Kallas EG, Santos BR, Deeks SG, Facente S,. Keating SM, Busch MP, Murphy G, Welte A, Quinn TC, Eshleman SH, Laeyendecker O. Dried blood spots stored at room temperature should not be used for incidence testing. AIDS Research and Human Retroviruses 34:10213-1016, 2018 [PMC: 6306669]

Muni K, Kobusingye O, Mock C, Hughes JP, Hurvitz PM, Guthrie B. Motorcycle taxi programme increases safe riding behaviours among its drivers in Kampala, Uganda. Injury Prevention. 12:1-6, 2018.

Stoner MCD, Nguyen N, Kilburn K, Gomez-Olive FX, Edwards JK, Selin A, Hughes JP, Ageyi Y, Macphail C, Kahn K, Pettifor A. Age-disparate partnerships and incident HIV infection in adolescent girls and young women in rural South Africa: An HPTN 068 analysis. AIDS 33:83-91, 2019 [PMC: 6279556]

Shafii T, Benson SK, Morrison DM, Hughes JP, Golden MR, Holmes KK. Results from e-KISS: electronic-KIOSK Intervention for Safer Sex: A pilot randomized controlled trial of an interactive computer-based intervention for sexual health in adolescents and young adults. PloS ONE 14(1):e0209064, 2019 [PMC: 6343886].

Rao DW, Carr J, Naismith K, Hood JE, Hughes JP, Morris M, Goodreau SM, Rosenberg ES, Golden MR. Monitoring HIV pre-exposure prophylaxis use among men who have sex with men in Washington State: findings from an internet-based survey STD 46:221-228, 2019.

Mitchell K, Hoots B, Dimitrov D, German D, Flynn C, Farley J, Gelman M, Hughes J, Donnell D, Adeyeye A, Remien R, Beyrer C. Paz-Bailey G, Boily MC. Improvements in the HIV care continuum needed to meaningfully reduce HIV incidence among men who have sex with men in Baltimore, US: a modelling study for HPTN 078. JAIDS 22:e25246, 2019.

Mannheimer S, Hirsch-Moverman Y, Franks J, Loquere A, Hughes JP, Li M, Amico KR, Grant RM. Factors Associated with Sex-Related Pre-Exposure Prophylaxis Adherence among Men Who Have Sex with Men (MSM) in New York City in HPTN 067. JAIDS 80:551-558, 2019.

* indicates student supervised by Hughes

† indicates senior authorship

In Press

Chambers LC, Morgan JL, Lowens MS, Robinson TS, Romano SS, Leipertz GL, Hughes JP, Golden MR, Khosropour CM, Fredricks DN, Manhart LE. A Cross-Sectional Study of Urethral Exposures at Last Sexual Episode Associated with Nongonococcal Urethritis among Sexually Transmitted Disease Clinic Patients. Sex Transm Infect.

Hanscom B, Donnell D, Williamson B, Hughes JP. Adaptive Non-Inferiority Margins under Observable Non-Constancy. Statistical Methods in Medical Research

Kilburn K, Hughes JP, MacPhail C, Wagner R, Gomez-Olive XF, Kahn K, Pettifor A. Cash transfers, young women’s economic well-being, and HIV risk: Evidence from HTPN 068. AIDS and Behavior.

Stoner M, Dennis AM, Hughes JP, Eshleman SH, Sivay MV, Hudelson SE, Grabowski MK, Wang J, Gomez-Olive FX, Twine R, MacPhail C, Piwowar-Manning E, Kahn K, Pettifor A. Characteristics associated with HIV transmission networks involving adolescent girls and young women in HIV Prevention Trials Network (HPTN) 068 study. STD

Selin A, DeLong SM, Julien A, MacPhail C, Twine R, Hughes JP, Agyei Y, Hamilton E, Kahn K, Pettifor A. HPTN 068: Prevalence and Associations, by Age Group, of Intimate Partner Violence among Adolescent Girls and Young Women in Rural South Africa. SAGE Open Medicine

Stoner MCD, Rucinski KB, Edwards JK, Selin A Hughes JP, Wang J, Agyei Y, Gomez-Olive FX, MacPhail C, Kahn K, Pettifor A. The relationship between school dropout and pregnancy among young women in South Africa: A HPTN 068 analysis. Health Behavior and Education.

Hughes RL, Marco M, Hughes JP, Keim NL, Kable ME. The role of the gut microbiome in predicting response to diet and the development of precision nutrition models. Part I: Overview of Current Methods. Advances in Nutrition.

Xu D, Xiao S, He H, Caine ED, Gloyd S, Simoni J, Hughes JP, Nie J, Lin M, He W, Yuan Y, Gong W. Effectiveness of mobile text messaging to improve schizophrenia adherence, symptoms, and functioning in a resource-poor community setting: a randomized controlled trial. PLoS Medicine

Submitted

1. Sandhya K, MacPhail C, Selin A, Gómez-Olivé F, Gottert A, Kahn K, Hughes J, Pettifor A. Gender attitudes and associations with sexual risk behaviors and outcomes among young South African women (HPTN 068). Perspectives on Sexual and Reproductive Health

2. Carter TJ, Golin C, Wang J, Bao Y, Hughes J, Justman J, Hodder S, Haley DF Prevalence of Sexual Minority Status among Women at Elevated Risk for HIV Infection: Associated Individual-level Factors and Sexual Risk Behaviors. AIDS Patient Care and STDs

3. Giovenco D, Pettifor A, Hughes JP, MacPhail C, Kahn, K. Self-esteem as an indicator of transactional sex among young women in rural South Africa (HPTN 068). JAIDS

4. Xi LF, Schiffman M, Hughes JP, Galloway DA, Koutsky LA, Kiviat NB. Changes in DNA Level of Oncogenic Human Papillomaviruses Other Than Types 16 and 18 in Relation to Risk of Cervical Intraepithelial Neoplasia Grades 2 and 3. Cancer Epidemiology, Biomarkers & Prevention

5. Kajeepeta S, DeLong SM, MacPhail C, Selin A, Gomez-Olive FX, Gottert A, Kahn K, Hughes JP, Pettifor A. Does it matter what girls think? Examining the link between support for gender equitable norms and intimate partner violence among adolescent girls and young women in South Africa (HPTN 068). South African Medical Journal

6. Xi LF, Schiffman M, Hughes JP, Galloway DA, Koutsky LA, Kiviat NB. Changes in DNA Level of Oncogenic Human Papillomaviruses Other Than Types 16 and 18 in Relation to Risk of Cervical Intraepithelial Neoplasia Grades 2 and 3. Cancer Epidemiology, Biomarkers & Prevention

7. Ren Y, Hughes JP, Heagerty PJ. A simulation study of statistical approaches to data analysis in the stepped wedge design. Statistics in Biosciences

8. Hughes JP, Heagerty PJ, Xia F, Ren Y. Robust inference for the Stepped Wedge Design. Biometrics.

9. Ojeda V, Amico KR, Hughes J, Wilson E, Li M, Holtz T, Chitwarakorn A, Grant R, Dye B, Bekker LG, Mannheimer S, Marzinke M, Hendrix C. Low Disclosure of PrEP nonadherence and HIV risk behaviors associated with poor HIV PrEP adherence in the HPTN 067/ADAPT Study. JAIDS

10. Odeny T, Hughes JP, Bukusi EA, Akama E, Geng EH, Holmes KK, McClelland S. Text messaging for maternal and infant retention in prevention of mother-to-child HIV transmission services: a pragmatic stepped-wedge cluster-randomized trial. PLoS Medicine

11. Giovenco D, Pettifor A, MacPhail C, Kahn K., Wagner RG, Piwowar-Manning E, Wang J, Hughes JP. Assessing risk for HIV infection among adolescent girls in South Africa: An evaluation of the VOICE risk score (HPTN 068). JAIDS

12. Holtz T, Chitwarakom A, Hughes JP, Curlin ME, Varangrat A, Li M, Amico KR, Mock PA, Grant RM. HPTN 067/ADAPT: Correlates of sex-related pre-exposure prophylaxis adherence, Thai men who have sex with men, and transgender women, 2012–2013. AIDS and Behavior.

13. Kestler E, Ambrosio G, Hemming K, Hughes JP, Matute J, Moreno M, Madriz S, Walker D. An integrated approach to improve maternal and perinatal indicators in rural Guatemala: a stepped-wedge cluster randomized trial. J Epidemiology and Community Health

14. Nguyen N, Powers KA, Miller WC, Howard AG, Halpern CT, Hughes JP, Wang J, Twine R, Gomez-Olive X, MacPhail C, Kahn K, Pettifor AE. Sexual Partner Types and Incident HIV Infection among Rural South African Adolescent Girls and Young Women Enrolled in HPTN 068: A Latent Class Analysis. JAIDS

15. Velloza J, Bacchetti P, Hendrix CW, Murname P, Hughes JP, Li M, Curlin M, Holtz TH, Mannheimer S, Marzinke MA, Amico KA, Liu A, Piwowar-Manning E, Eshleman SH, Dye BJ, Gandhi M, Grant RM. Short and long-term pharmacologic measures of HIV pre-exposure prophylaxis use among high-risk men who have sex with men in HPTN 067/ADAPT. JAIDS

16. Stoner MCD, Neilands TB, Kahn K, Hughes JP, Gomez-Olive FX, Twine R, Tollman S, Laeyendecker O, MacPhail C, Ahern J, Lippman SA, Pettifor A. Multilevel measures of education and pathways to incident HSV-2 in adolescent girls and young women in South Africa enrolled in HIV Prevention Trials Network 068 Study. J Adolescent Health.

17. Goin DE, Pearson, RM, Craske MG, Stein A, Pettifor SA,Lippman SA, Kahn K, Neilands TB, Hamilton EL, Selin A, MacPhail C, Wagner RG, Gomez-Oliver X, Twine R, Hughes JP, Agyei Y, Laeyendecker O, Tollman S, Ahern J. Depression and incident HIV in adolescent girls and young women in HPTN 068: targets for prevention and mediating factors. Am J Epidem.

18. Fogel JM, Sivay MV, Cummings V, Wilson EA, Hart S, Gamble T, Laeyendecker O, Fernandez RE, Del Rio C, Batey DS, Mayer KH, Parley JE, McKinstry L, Hughes JP, Remien RH, Beyrer C, Eshleman SH. HIV drug resistance in a cohort of HIV-infected men who have sex with men in the United States. AIDS

19. Ranganathan M, Kilburn K, Stoner MCD, Hughes JP, MacPhail C, Gomez-Olive FX, Wagner RG, Kahn K, Agyei Y, Pettifor A. The mediating role of partner selection in the association between transactional sex and incident HIV infection among a cohort of young women. AIDS

20. Chambers LC, Hughes JP, Glick SN, Morgan JL, Lowens MS, Robinson TS, Romano SS, Leipertz GL, Jensen JS, Khosropour CM, Fredricks DN, Golden MR, Manhart LE. Resolution of Symptoms and Resumption of Sex after Diagnosis of Nongonococcal Urethritis Among Men who Have Sex with Men. J. Infectious Diseases.

Other Published Scholarly Papers (proceedings, policy papers and reviews, book chapter, letters)

Polissar L, Lowry KA, Omenn G, Burbacher T, Covert D, Hughes JP, Kalman D, Mottet K, van Belle T: Tracing the pathways of arsenic. In: Proceedings of the Society for Risk Analysis, October 1985.

Hughes JP, Beekly D, Kent DL: Software Review: MEDLOG. Med Decis Making 10:150-151, 1990.

Bird TD, Hughes JP, Sumi SM, Nochlin D, Schellenberg GD, Lampe TH, Nemens EJ: A proposed classification scheme of familial Alzheimer's disease based on analysis of 32 multigeneration pedigrees. In: Proceedings of International Symposium on Alzheimer's Disease, 1991.

Hughes JP, Lettenmaier DP, Wood EF: An approach for assessing the sensitivity of floods to regional climate change. In: The World at Risk: Natural Hazards and Climate Change. American Institute of Physics Conference Proceedings 277 (R Bras, ed.). Cambridge: American Institute of Physics, 1992.

Guttorp P, Hughes JP, Sampson PD: A hydrological rainfall model using atmospheric data with application to climate model impact evaluation. In: Proceedings of the 5th International Meeting on Statistical Climatology, Toronto, ON, Canada, 1992.

Hughes JP, Guttorp P: Nonhomogeneous hidden Markov models relating synoptic atmospheric patterns to local hydrologic phenomena. In: Proceedings of American Geophysical Union Thirteenth Annual Hydrology Days, Fort Collins, CO. Hydrology Days Publications, Atherton, CA, 1993.

Aral SO, Hughes JP, Stoner B, Whittington W, Holmes KK: Demographic and behavioral concordance between sex partners: Partnerships infected with chlamydia trachomatis are different than those infected with gonorrhea and syphilis. In: Proceedings of the Eighth International Symposium on Human Chlamydial Infections, Gouvieux-Chantilly, France, 1994.

Givens G, Hughes JP: A method for determining uncertainty of predictions from deterministic epidemic models. In: Proceedings of the 1995 SCS Western Multiconference on Health Science, Physiology and Pharmacological Simulation Studies, Las Vegas, NV, 1995.

Charles SP, Hughes JP, Bates BC, Lyons TJ: Assessing downscaling models for atmospheric circulation - local precipitation linkage. In: Proceedings of the International Conference on Water Resources and Environmental Research: Towards the 21st Century, Tokyo, Japan, 1996.

Bates BC, Charles SP, Hughes JP: Stochastic down scaling of numerical climate model simulations. In: Proceedings of MODSIM97 International Congress on Modeling and Simulation, Hobart, Tasmania, 1997.

Commentary on “Increased sensitivity of DNA amplification testing for the detection of pharyngeal gonorrhea in men who have sex with men” by Page-Shafer, K et al., Clinical Infectious Diseases 34:173-176, 2002. Review for World Health Organization STD Diagnostics Initiative, 2003 (who.int/std_diagnostics/literature_reviews/Issue_1/review_Page-Shafer.htm)

Aral SO, Hughes J, Gorbach P, Stoner B, Manhart L, Garnett G, Foxman B, Golden M, Holmes KK: The Seattle “Sexual Mixing”, “Sexual Networks”, and “Sexual Partnership Types” Studies. In: Network Epidemiology: A handbook for survey design and data collection, edited by M. Morris, Oxford University Press, Oxford, 2004

Commentary (with L Miller) for “Evaluation of a New Rapid Diagnostic Kit (FemExam) for Bacterial Vaginosis in Patients with Vaginal Discharge Syndrome in The Gambia” by West, B et al, Sexually Transmitted Diseases. 30(6):483-489, 2004. Review for World Health Organization STD Diagnostics Initiative, 2004 (who.int/std_diagnostics/literature_reviews)

Commentary (with J Marrazo) on “Diagnosis of bacterial vaginosis: need for validation of microscopic image area used for scoring bacterial morthotypes” by Larsson et al.. Sex. Transm Inf 2004;80:63-67. Review for World Health Organization STD Diagnostics Initiative, 2005 (who.int/std_diagnostics/literature_reviews)

Commentary on Hoyo C, Hoffman I, Moser BK, Hobbs MM, Kazembe P, Krysiak RG, Cohen MS. Improving the accuracy of syndromic diagnosis of genital ulcer disease in Malawi. Sex Transm Dis 2005;32:231-37. . Review for World Health Organization STD Diagnostics Initiative, 2007 (who.int/std_diagnostics/literature_reviews)

Technical Reports

Hughes JP, Lettenmaier DP: Aquatic monitoring: Data analysis and network design using regionalized variable theory. University of Washington, Department of Civil Engineering Technical Report No. 65, 1980.

DeVary JL, Hughes JP: KRIGLIB - A kriging software library. Office of Nuclear Waste Isolation, Battelle Project Management Division, Richland, WA, 1984.

Lowry KA, Hughes JP: Historical data review: Arsenic levels in the Tacoma community. University of Washington, School of Public Health and Community Medicine, 1984.

Lettenmaier DP, Conquest LL, Hughes JP: Routine streams and rivers water quality trend monitoring review. University of Washington, Department of Civil Engineering, Technical Report No. 72, 1985.

Hughes JP, Polissar L, van Belle G: Power of health effects studies of communities surrounding arsenic producing industries. University of Washington, Department of Biostatistics, Technical Report No. 78, 1986.

Hughes JP, van Belle G, Kukull W, Larson EB, Teri L: On the uses of registries for Alzheimer's disease, University of Washington, Department of Biostatistics, Technical Report No. 87, 1988.

Lettenmaier DP, Fisher S, Palmer RN, Millard SP, Hughes JP: Water management implications of global warming 1. The Tacoma water supply system. Institute for Water Resources, US Army Corp of Engineers, Fort Belvoir, VA, 1994.

Lettenmaier DP, Wood AW, Palmer RN, Millard SP, Hughes JP, Fisher SM: Water management implications of global warming 3. The Savannah water supply system. Institute for Water Resources, US Army Corp of Engineers, Fort Belvoir, VA, 1995.

Lettenmaier DP, Ford D, Fisher SM, Hughes JP, Nijssen B: Water management implications of global warming 4. The Columbia River Basin. Institute for Water Resources, US Army Corp of Engineers, Fort Belvoir, VA, 1995.

Hughes JP, Richardson BA: Estimation of the joint distribution of infection-time and death-time for vertical transmission of HIV-1. University of Washington, Department of Biostatistics, Technical Report 162, 1998.

Hughes JP, Goldenberg RL, Wilfert CM, Valentine M, Mwinga KG, Guay LA, Mmiro F, and Stringer JS: Design of the HIV Prevention Trials Network (HPTN) Protocol 054: A cluster randomized crossover trial to evaluate combined access to Nevirapine in developing countries. University of Washington, Department of Biostatistics, Technical Report 195, 2003 ().

Sal y Rosas G, Hughes JP: Nonparametric and Semiparametric Analysis of Current Status Data Subject to Outcome Misclassification UW Biostatistics Working Paper Series. Working Paper 364. 2010 ()

10. Funding History (PI: All; Other: 2011 – present)

PI role

Quantitative Methods for Studying Infectious Diseases, subcontract from UCSF (overall PI: Bacchetti), NIAID, 1997-1999

Greenhouse effects in Southwestern Australia, Royalty Research Award, University of Washington, 1996-1997.

STD Clinical Research Center, Biostatistical Core (overall PI: Holmes), NIAID, 1997 – 2009

Statistical Methods for AIDS Research, NIAID (AI029168), $476000, 2009 – 2014.

Leadership for HIV/AIDS Clincal Trials Networks: Prevention Trials Network, subcontract from FHCRC (overall PI: Donnell), NIAID (AI146702), $192000, 2007 – 2013

Statistical Methods for AIDS Research, NIAID (AI029168), $602115, 2014 – 2019.

Leadership for HIV/AIDS Clinical Trials Networks: Prevention Trials Network, subcontract from FHCRC (overall PI: Donnell), NIAID (AI146702), $192000, 2014 – 2021

STI Clinical Research Center, Biostatistical Core (overall PI: Marazzo), NIAID, $322,457, 2014 - 2019

Other

A community-level RCT of expedited partner treatment for gonorrhea and Chlamydia, M. Golden, NIAID (AI068107), $499000, Biostatistician, 5%, 2010-2011.

Immunological and virological events in early HIV infection, J Mullins, NIAID (AI057005), $1615000, Biostatistician, 10%, 2010 – 2015.

Multicomponent, Targeted HIV Prevention for Sub-Saharan Africa: PreventionRX, C Celum, NIAID (AI083034), $657000, Biostatistician, 7.5%, 2009 – 2013.

Statistical Methods for Combination HIV Prevention Approaches, Y Chen, NIAID, $556,773, CO-investigator, 10%, 2014 – 2019.

12. Conferences and Symposiums

Hughes JP: Use of path analysis in exposure assessment studies. Centers for Disease Control, November 1986.

Hughes JP, Millard SP: Nonparametric statistical methods in the presence of multiple censoring points. American Water Resources Association Annual Conference, November 1986.

Hughes JP, Fillenbaum G, Mortimer J, Weiderholt WC, Karp H, Heyman A: Differences in cases of Alzheimer's disease among clinical sites: The CERAD experience. American Association of Neurology, September 1989.

Hughes JP, Guttorp P, Lettenmaier DP: A stochastic approach for assessing the effect of changes in regional circulation patterns on local precipitation. American Geophysical Union, November 1991.

Hughes JP: Defining familial Alzheimer's Disease in the presence of incomplete data. American Association for the Advancement of Science, February 1992.

Hughes, JP: Identifying familial Alzheimer's disease: Issues and methods. Western North American Region of the Biometric Society, June 1992.

Hughes JP, Guttorp P: A class of stochastic models for relating synoptic atmosphic patterns to local hydrologic phenomenon. Fourth International Conference on Precipitation, Iowa City, IA, April 1993.

Hughes JP, Givens G: A method for assessing uncertainty of predictions from deterministic epidemic models. International Society for STD Research, New Orleans, LA, August 1995.

Hughes JP, Bellone E, Guttorp P: Statistical downscaling of precipitation: An example using the AMIP simulations. Seventh International Meeting on Statistical Climatology, Whistler, British Columbia, May 1998.

Hughes JP, Richardson BA: Estimation of the joint distribution of infection time and death time for vertical transmission of HIV-1. Joint Statistical Meetings, Baltimore, MD, August 1999.

*Aral S, Gorbach P, Hughes JP, Holmes KK: The Seattle (Sexual Mixing(, (Several Networks( and (Several Partnership Types( studies. Conference on Partnership Networks and the Spread of HIV and Other Infections, Chaing Mai, Thailand, February 2000.

*Hughes JP: Hierarchical models for studying climate variability and climate change in SW Australia. Workshop on Hierarchical Modeling in Environmental Statistics, Columbus, Ohio, May 2000.

*Hughes JP: Weather simulation methods. Plenary speaker at 8th International Meeting on Statistical Climatology, Luneburg, Germany, March 2001.

*Hughes JP: Hierarchical models for studying climate variability and climate change in SW Australia. ENAR, Charlotte, SC, March 2001.

Hughes JP and Burington B: Modeling sexual partnerships. Center for Statistics and the Social Sciences, University of Washington, Seattle, April 2003.

*Hughes JP: The theoretical population-level impact of a prophylactic HPV vaccine. Grand Rounds, Arizona Cancer Center, April, 2003.

*Hughes JP. Design and Analysis of Stepped Wedge Trials. STI/TM CRC Annual Meeting, June, 2006.

*Hughes JP. New Designs for Community Randomized Trials. Seminars in Global Health. Universidad Peruana Cayetano Heredia, March 2007.

*Hughes JP. Novel Designs for Community Randomized Trials: The Stepped Wedge. Centers for Disease Control, May 2007.

20. *Hughes JP. Statistical Issues in HIV Prevention Trial Research. HIV Prevention Trials Network Annual Meeting, April 2008.

*Hughes JP. Statistical Issues in HIV Prevention Trial Research. Society of Clinical Trials Annual Meeting, April 2009.

*Hughes JP. Statistical Issues in HIV Prevention Trial Research. Harvard Workshop on Methods for Community-Level HIV Prevention Research. May 2009.

*Bill and Melinda Gates Foundation Working Group Meeting on Statistical Methods for HIV Prevention Research. September, 2010

*Hughes JP. Design Issues for Trials of Combination Prevention Interventions. NIH Workshop on Methods for HIV Prevention Research. Sept 2010

*Hughes JP and Dai J. Vaccine efficacy Evaluation. NIH Workshop on Alternative Study Design for HIV Vaccine Early Efficacy Evaluation, Jan 2011

Hughes JP. Determinants of per coital act HIV-1 infectivity among HIV-1 serodiscordantcouples. Conference on Retrovirology and Oppurtunistic Infections, March, 2011

*Hughes JP. Evaluation of Combination Interventions. NIH Workshop on Methods for HIV Combination Prevention Research. Sept 2011

* WHO and U.S. NIH Working Group Meeting on Treatment for HIV Prevention among MSM: What Additional Evidence is Required? October, 2011

*Bill and Melinda Gates Foundation Working Group Meeting on Hormonal Contraception – HIV Acquisition Risk. December, 2011

21. *Hughes JP. Adherence, drug concentration and PrEP efficacy HPTN Annual Meeting, Invited Presentation, June 2012.

*Hughes JP. Regression to the Mean and Changes in Risk Behavior during Longitudinal Cohort Studies. HPTN Annual Meeting, June 2014.

*Hughes JP. Combining Information to Estimate Adherence to Self-administered Medications, ENAR, March, 2015.

22. *Hughes JP. Stepped Wedge Designs for Multiple Interventions. First International Conference on Stepped Wedge Trial Design, York, UK, March, 2016.

23. *Hughes JP Stepped Wedge Designs and the Washington State EPT Trial. Simulating Intervention Trials Workshop, Seattle, WA, August, 2016

24. *Hughes JP Stepped Wedge Trials. 2nd Seattle Symposium on Health Care Data Analytics, Seattle, WA, August, 2016.

25. *Hughes JP. Stepped Wedge Trials, Columbia University, Department of Psychiatry, New York, March, 2017.

26. *Hughes JP. Workshop on “Que Vivan Las Madres” project in Guatemala. Consulted on data analysis and presented results to Guatemalan Minister of Health, April, 2017.

*Hughes JP. Combining Information to Estimate Adherence to Self-administered Medications, WNAR, June, 2017.

27. *Hughes JP. Analytic Issues in Epidemiology and the microbiome. Society for Epidemiologic Research, Seattle, WA, June, 2017.

28. *Hughes JP. Robust Inference for Stepped Wedge Designs. Second International Conference on Stepped Wedge Trial Design, York, UK, March, 2018.

29. * Hughes JP. Correction factors using biomarkers to correct for underreporting for behavioral risk. Advancing Bio-behavioral Surveys Consultation, CDC, Atlanta, GA, Sept., 2018.

30. .

* Invited

13. University Service

Biostatistics

Organizer: Pacific Northwest Statistical Meetings, Spring 1998

M.S. Theory Exam Committee, 1995, 1998, 2001

Visitors, Postdocs and Minority Recruitment Committee, 1993-1996

Ph.D. Applied Exam Committee 2007, 2010, 2011, 2012, 2014, 2016, 2017 (co-chair)

Ph.D. Applied Exam Grader, 1994, 1996, 2000, 2002, 2003, 2004, 2005, 2006, 2009, 2013

Admissions Committee, 1997, 2005, 2006, 2007

Consulting Committee, 1998-2002

Core Curriculum Committee, 1999-2002

Ad-Hoc Committee for Career Development Funding (Chair), 2001

Promotion Committee for Barbra Richardson (Chair), 2002

Mentoring and Career Development Committee, 2001-2006

Search Committee, 2003

PhD Theory Exam Committee (Chair) 2003

Promotion Committee for Peter Gilbert (Chair) 2003

Co-organizer: Joint UW-FHCRC Biostatistical Meeting, Nov. 2004

Promotion Committee for Peter Gilbert 2007

CFAR Biostat Core advisory Committee 1998 – 2007

Search Committee (Chair) 2009

Ad-hoc Committee to Review Service Courses (Chair) 2009

EPTEC 2008 – 2018

Distance Learning Committee (Chair), 2010 - 2014

Ad-hoc Committee to Review Quantitative Curriculum for MPH (2016)

Statistics

Visitors Committee, National Center for Statistics in the Environment, University of Washington, 1997-98

SPH

SPHCM Faculty council, alternate, 2008 - 2011

SPHCM Bylaws committee, 2009

SPH Faculty council, 2011 – 2014

SPH Undergraduate Teaching Task Force, 2011 – 2018

SPH Distance Learning committee, 2012 – 2014

SPH MPH re-envisioning committee, 2018

14. Professionally-Related Community Service

FHCRC

HVTN Biostatistician Search Committee, 2003, 2007

Promotion Committee for Yijian Huang, 2003

Promotion Committee for Peter Gilbert, 2007

Mentoring committee for James Dai, 2009 – 2013

Math Modeling/Biostat Search Committee, 2010

MTN Search Committee, 2010

Promotion committee for Elizabeth Brown, 2013

Promotion committee for Lurdes Inoue, 2014

16. Teaching History

Formal Courses

|Course |Quarter |Title |

|BIOST 111 |Spring 1995 |Lectures in Applied Statistics |

|BIOST 590 |Summer 1993 |Consulting (50% w/Temkin) |

| |Winter 1994 |Consulting (50% w/Martin) |

| |Summer 1998 |Consulting |

|BIOSTAT 505 |Autumn 2008 |Biostatistics I (on-line course) |

|BIOSTAT 508 |Winter 2017 |Biostatistical Reasoning for the Health Sciences |

|BIOSTAT 511 |Autumn 1999 |Medical Biometry I |

| |Autumn 2000 |Medical Biometry I |

| |Autumn 2001 |Medical Biometry I |

| |Autumn 2002 |Medical Biometry I |

| |Autumn 2006 |Medical Biometry I |

| |Autumn 2007 |Medical Biometry I |

| |Autumn 2008 |Medical Biometry I |

| |Autumn 2009 |Medical Biometry I |

| |Autumn 2010 |Medical Biometry I |

| |Autumn 2015 |Medical Biometry I |

| |Autumn 2017 |Medical Biometry I |

| |Autumn 2018 |Medical Biometry I |

|BIOSTAT 513 |Spring 2004 |Medical Biometry III |

| |Spring 2005 |Medical Biometry III |

| |Spring 2006 |Medical Biometry III |

| |Spring 2012 |Medical Biometry III |

|BIOSTAT 310 |Winter 2013 |Biostatistics for the Health Sciences |

| |Winter 2014 |Biostatistics for the Health Sciences |

| |Autumn 2014 |Biostatistics for the Health Sciences |

Guest Lectures

|Course |Quarter |

|BIOST 111 |Spring 2008 |

|NMETH 515 |Spring 2007 |

|NMETH 515 |Spring 2008 |

|EPI/HSERV 539 |Winter 2006 |

|EPI/HSERV 539 |Winter 2007 |

|EPI/HSERV 539 |Winter 2008 |

|GH 563/EPI 549 |Spring 2010 |

|GH 563/EPI 549 |Spring 2011 |

|GH 563 |Spring 2012 |

|GH 563 |Spring 2013 |

|GH 563 |Spring 2014 |

|GH 563 |Spring 2015 |

|GH 563 |Spring 2016 |

|GH 541 |Spring 2017 |

|GH541 |Spring 2018 |

|GH 531 |Winter 2009 |

|GH 531 |Winter 2010 |

|GH 531 |Winter 2011 |

|GH 531 |Winter 2012 |

|GH 531 |Winter 2013 |

|GH 531 |Winter 2014 |

|GH 531 |Winter 2015 |

|GH 531 |Winter 2016 |

Independent Study

Juan Juan Fan: Spring 1994

Heidi Smith: Autumn 1995

Ted Lystig: Spring, Summer 1997

Rod Gullberg: Autumn 1999, Winter 2000, Spring 2000

Emily Marino: Winter 2000, Spring 2000, Autumn 2000

Pam Shaw. Fall 2003, Winter 2004, Spring 2004

JoAnna Scott: Fall 2004

Elizabeth Thomas: Summer 2005

Giancarlo Salyrosas: Fall 2005 – Winter 2008

Ken Wu: Winter – Fall 2007

Tanya Granston: Winter – Spring 2009

William Tessler, 2013 -2014

17. Advising and Formal Mentoring

Ph.D. Dissertation Chair

Enrica Bellone (co-chair with Peter Guttorp, Statistics), Ph.D., Spring 2000: “Nonhomogeneous hidden Markov models for downscaling synoptic atmospheric patterns to precipitation amounts”

Ted Lystig, Ph.D., Spring 2001: “Evaluation of hidden Markov models”

Giancarlo Salyrosas, Ph.D., Spring 2011: “Outcome Misclassification with Current Status Data”

Tanya Granston, Ph.D., Autumn 2013: “Addressing Issues with the Stepped Wedge Design of Cluster-Randomized Clinical Trials”

Brett Hanscom (co-chair with Susanne May, Biostatistics), Ph.D., Summer 2014: “Biostatistical Methods for HIV Monitoring and Prevention”

M.S. Thesis Chair

Heidi Smith, M.S., Autumn 1995: “Antibiotic use as a risk factor for urinary tract infection.”

Anthony Mwatha, M.S., Summer 1996: “Modeling progression and regression of cervical abnormalities.”

Kathy Thomas, M.S., Winter 1999: “Concurrent and sequential acquisition of different genital human papillomavirus types.”

San-San Ou, M.S., Autumn 2003: “Methods for Assessing the Accuracy of PCR-Based Tests: Comparisons and Extensions.”

Mike Hussey, M.S., Summer 2005: “Cluster Randomized Crossover Trials: Aspects of Power, Variance, and Bias in the Stepped Wedge Design.”

Krista Yuhas, M.S., Spring 2011: “Improving the Efficiency of the Treatment Estimate in HIV Prevention Trials: Evaluation of a Semi-Parametric Efficient Approach”

Chloe Krakauer, M.S., Autumn, 2014: “The Use of Pharmacokinetics to Estimate Adherence During a Clinical Trial Implementing a Bayesian Framework”

Gordon Chau, Summer, 2015: “Bayesian estimation of participants’ adherence in an HIV prevention trial using multiple data sources and pharmacokinetic models”

Ethan Wilson, Winter, 2016: “A method for quantifying the regression to the mean effect applied to bivariate binary outcomes in the presence of limited baseline data”

Lingyu Li, Summer, 2016:”Stepped wedge designs for multiple interventions”

Yuqi Ren, Spring, 2018: “A Simulation Study of Statistical Approaches to Data Analysis in the Stepped Wedge Design”

Other Committee Membership

Department of Biostatistics

Steve Hawes, M.S., Summer 1993

Nicole Mayer, Ph.D. Spring 1999

Amalia Meier, Ph.D., Autumn 2001

Bart Burington, Ph.D., Winter 2009

Zheng Zhang, Ph.D., 2004

Petra Miksova, Ph.D., 2004

James Ochieng' Okuma, M.S., 2004

Holly Janes, Ph.D., 2005

JoAnna Scott, Ph.D., Autumn, 2008

Nate Mercado, MS, Autumn, 2006

Danping Liu, Ph.D., Autumn, 2010

Ken Wu, Ph.D., Spring, 2011

Rachel Debes, MS, Summer, 2011

Yea-Hung Chen, Ph.D., 2012

Amy Laird, Ph.D., Autumn, 2013

Allan DeCamp, Ph.D., Autumn, 2013

Jane Lange, Ph.D., Spring, 2014

Yates Coley, Ph.D., Summer, 2014

Luis Alexander, Ph.D., 2013

Anna Korpak, Ph.D., Summer, 2016

Allison Meisner, Ph.D., Fall 2017

Jon Fintzi, Ph.D. Fall 2018

Adam Brand, MS, Summer, 2016

Fan Xia, PhD., current

Tingzhi Fang, MS, Fall, 2018

Austin Schumacher, PhD, current

Alex Paynter, MS, current

Department of Statistics

Sandra Caitlin, Ph.D., Summer 1997

Department of Epidemiology

Holly Hegan, Ph.D., Autumn 1997

David Schoultz, Ph.D., Summer 1997

Tao Sheng C. Kwan-Gett, MPH, Spring 1998

Long Fu Xi, Ph.D., Winter 1998

Annette Ghee, Ph.D., Winter 2006

Rachel Winer, Ph.D., Autumn 2005

Elizabeth Brown, Ph.D., Fall 2005

Janet Baseman, Ph.D., Spring 2005

Elya Prystowsky, Ph.D., Autumn 2006

Jeff Partridge, Ph.D., Spring 2006

Laura Sycuro, M.S., Winter, 2006

Akhila Balasubramanian, Ph.D., Winter, 2008

William Reidy, Ph.D., Spring, 2008

Tim Menza, Ph.D., Summer, 2009

Kenneth Gimbell-Sheer, Ph.D., Summer, 2009 (GSR)

Ali Rowhani-Rahbar, Ph.D., Winter, 2009

Martin Casapia, MPH, Spring, 2007

Armondo Cotrina, MPH, Summer, 2009

Zoe Edelstein, MS, Summer, 2007

Yuzo Arima, Ph.D., Summer, 2010 (GSR)

Antonia Bernabe-Ortiz, MPH, Spring 2009

Matt Thomas, Ph.D., Autumn, 2010

Barrot Lambdin, Ph.D., Autumn, 2010 (GSR)

Zoe Edelstein, Ph.D., Spring, 2011 (GSR)

Fredy Canchihuaman, Ph.D., Spring, 2011 (GSR)

Rachel Hanisch, Ph.D., Spring, 2012 (GSR)

David Katz, Ph.D., Fall, 2012 (GSR)

Erin Kahle, Ph.D., Summer, 2013 (GSR)

Jennifer Broad, Ph.D., DNF (GSR)

Tsung-chieh (Jane) Fu, Ph.D., Fall, 2014

Danny Colombara, Ph.D., Summer, 2014 (GSR)

Eli Kern, MPH, Winter, 2013

Christine Khosropour, Ph.D., Summer, 2015 (GSR)

Kate Wilson, Ph.D., Summer, 2015 (GSR)

Kristjana Asbjornsdottir, Ph.D., Summer, 2015 (GSR)

Kenneth Mugwanya, Ph.D., Spring, 2016 (GSR)

Bradley Wagenaar, Ph.D., Spring, 2015 (GSR)

Thomas Odeny, Ph.D., Summer, 2016 (GSR)

Anguli Wagnar, Ph.D., Fall, 2015 (GSR)

Bourke Betz, MS, Summer, 2014

Julia Hood, Ph.D., Autumn, 2016

Monisha Sharma, Ph.D., Summer, 2016

Kerry Thomson, Ph.D., Fall, 2017 (GSR)

Marla Husnik, Ph.D., current (GSR)

Erica Lokken, Ph.D., current (GSR)

Laura Chambers, Ph.D., Winter 2019

Darcy Rao, Ph.D., current (GSR)

Tigran Avoundjian, Ph.D., current (GSR)

Bridget Whitney, Ph.D., current (GSR)

Mark Tenforde, Ph.D., Spring, 2019(GSR)

John Kundzins, MPH, current

Terra Forward, MPH, current

Department of Global Health

Peter Cherutich, Ph.D., summer, 2015 (GSR)

Roman Xu, Ph.D., Fall, 2017

Arianna Means, Ph.D., Summer 2017 (GSR)

Brianne Rowen, MPH, Summer, 2016

Christopher Kemp, Ph.D. current (GSR)

Kennedy Muni, Ph.D. Spring 2019 (GSR)

Valentine Wanga, Ph.D. current (GSR)

Sarah Matsuko, Ph.D., current (GSR)

Megan Mayer, MPH, current

Danae Black, Ph.D., current

Department of Health Services

Victoria Hughes, MPH, Summer 2006

Department of Bioengineering

Stephanie Martin, Ph.D., Winter 2003

Department of Fisheries and Ocean Science

Gerald Hoff, Ph.D., Winter 2007

Department of Civil Engineering

Nicoleta Cristea, Ph.D., Fall, 2012 (GSR)

Undergraduate Research Supervision

Marlena Norwood, PH major, 2014 - 2015

Research Assistant Supervision

Juan Juan Fan, 1994

Ted Lystig, 1997-2001

Michael Li, 2000

Bart Burington, 2002 – 2003

Giancarlo Salyrosas, 2006 – 2011

Rachel Debes, 2009 – 2011

Navneet Hakhu, 2009 – 2014

Tanya Granston, 2011 – 2013

Chloe Krakauer, 2012 – 2014

Minkyu Kim, 2012

Brian Williamson 2015 – 2019

Fan Xi 2015 – 2019

Brayan Ortiz 2015 – 2017

Avi Kenny 2018 - 2019

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