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Thomas Denny

Professor of Medicine and Global Health
School of Medicine
HIV-AIDS Vaccine Immunology, Center for

(919) 681-1023

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Denny Thomas


Thomas N. Denny, MSc, M.Phil, is the Chief Operating Officer of the Duke Human Vaccine Institute (DHVI) and the Center for HIV/AIDS Vaccine Immunology (CHAVI), and a Professor of Medicine in the Department of Medicine at Duke University Medical Center. He is also an Affiliate Member of the Duke Global Health Institute. He has recently been appointed to the Duke University Fuqua School of Business Health Sector Advisory Council. Previously, he was an Associate Professor of Pathology, Laboratory Medicine and Pediatrics, Associate Professor of Preventive Medicine and Community Health and Assistant Dean for Research in Health Policy at the New Jersey Medical School, Newark, New Jersey. He has served on numerous committees for the NIH over the last two decades and currently is the principal investigator of an NIH portfolio in excess of 56 million dollars. Mr. Denny was a 2002-2003 Robert Wood Johnson Foundation Health Policy Fellow at the Institute of Medicine of the National Academies (IOM). As a fellow, he served on the US Senate Health, Education, Labor and Pensions Committee with legislation/policy responsibilities in global AIDS, bioterrorism, clinical trials/human subject protection and vaccine related-issues.



Recent Publications

Chen Y, Hora B, DeMarco T, Ahmed M, Sanchez AM, Su C, Carter M, Hasan R, Hasan Z, Busch MP, Denny TN, Gao F. “ Fast Dissemination of New HIV-1 CRF02/A1 Recombinants in Pakistan”. PLoS One, 2016 Dec 14; 11(12):e0167839. Doi: 10.1371/journal.pone.0167839. eCollection 2016. Doi: 10.1371/journal.pone.0167839 PMID: 27973597

McKay HS, Margolic JV, Martinez-Maza ), Lopez J, Phair J, Rappocciolo G, Denny TN, Magpantay LI, Jacobson LP, Bream JH. "Multiplex assay reliability and long-term intra-individual variation of serologic inflammatory biomarkers." Cytokine. 2016 Dec 8; 90:185-192. Doi: 10.1016/j.cyto.2016.09.018. PMID: 27940218

Astronomo RD, Santra S, Ballwebr-Fleming L, Westerberg KG, Mach L, Hensley-McBain T, Sutherland L, Mildenberg B, Morton G, Yates NL, Mize GJ, Pollara J, Hladik F, Ochsenbauer C, Denny TN, Warrier R, Rerks-Ngarm S, Pitisuttithum P, Nitayapan S, Kaewkungwal J, Ferrari G, Shaw GM, Xia SM, Liao HX, Montefiori DC, Tomaras GD, Haynes BF, Juliana McElrath M "Neutralization Takes Precedence over IgG or IgA Isotype-related Functions in Mucosal HIV-1 Antibody-mediated Protection." EBioMedicine 2016 Dec; 14:97-111. Doi: 10.1016/j.ebiom. 2015.11.024. Epub 2016 Nov 21. PMID: 27919754

Negri D, Blasi M, LaBrance C, Parks R, Balachandran H, Lifton M, Shen X, Denny T, Ferrari G, Vesico MF, Andersen H, Montefiori DC, Tomaras GD, Liao HX, Santra S, Haynes BF, Klotman ME, Cara A. "Immunization with an SIV-based IDLV Expresing HIV-1 Env 1086 CLace C Elicits Durable Humoral and Cellular Responses in Rhesus Macaques." Mol Ther. 2016 Nov; 24(11):2021-2032.

Bhavna Hora, Sheila M. Keating, Yue Chen, Ana M. Sanchez, Ester Sabino, Gillian Hunt, John Hackett Jr, Priscilla Swanson, Indira Hewlett, Viswanath Ragupathy, Sai Vikram Vemula, Peibin Zeng, Kok-Keng Tee, Wei Zhen Chow, Hezhao Ji, Paul Sandstrom, Thomas N Denny, Michael P Busch and Feng Gao. Genetic characterization of a Panel of Diverse HIV-1 Isolates at Seven International Sites. PloS One 2016 June 17: 11(6):30157340. Doi: 10.1371/journal.pone.0157340. PMID 27314585

Wes Rountree, Mark Berrong, Ana Sanchez, Thomas N. Denny, Guido Ferari. Variability of the IFN-%u03B3 ELISpot assay in the context of proficiency testing and bridging studies. Journal of Immunological Methods 2016 June; 433:69-76. doiL 10.1016/j.jim.2016.03.004. Epub 2016 March 25 PMID 27021273

Demarco T, Rountree W, Hora B,Chen Y,Keinonen S,Racz L,Daniell L,Louzao R, Sanchez A,Busch M,Denny T,Gao F. HIV-1 subtype C is significantly more infectious than other subtypes. JIAS18 Jul 2015; Vol 18; ISSN 1758-2652; Doi: 10.7448/IAS.18.5.20462 pp 112.

Sallie Permar, Youyi Fong, Nathan A. Vandergrift, Genevieve Fouda, Peter B. Gilbert, Robert Parks, Frederick Jaeger, Justin Pollara, Amanda Martelli, Brooke Leibl, Krissy Lloyd, Nicole Yates, Glenn Overman, Xiaoying Shen, Kaylan Whitaker, Haiyan Chen, Jamie Prichett, Erika Solomon, Emma Friberg, Dawn J. Marshall (Duke Univeristy John WhitesidesThaddeus C. Gurley, Tarra Von Holle, David Martinez, Fangping Cai, Amit Kumar, Shi-Mao Xia, Xiaozhi Lu, Raul Louzao, Samantha Wilkes, Saheli Datta, Marcella Sarzotti-Kelsoe, Xin Liao, Guido Ferrari, S Munir Alam, David Montefiori, Thomas Denny, M Anthony Moody, Georgia D. Tomaras, Feng Gao, Barton F. Haynes. Maternal HIV-1 envelope-specific antibody responses and reduced risk of perinatal transmission. J Clin Inves. 2015 July 1; 125 (7): 2702-6. Doi: 10.1172/JCI81593. Epub 2015 Jun 8. PMID 26053661

Rosanna W Peeling, PhD, Kimberly Sollis, Suzanne Crowe, Alan Landay, Ben Cheng, Sarah Glover, David Barnett, Tom Denny, Tom Spira, Wendy Stevens, Siobhan Crowley, Shaffiq Essajee, Marco Vitoria, Nathan Ford. CD4 Enumeration Technologies: A Systematic Review of Test Performance for Determining Eligibility for Antiretroviral Therapy. PLOS One 2015 March 19;10 (3): 3o155019. Doi: 10.1371/journal.pone.0115019. PMID 25790185 PMCID PMC4366094.

Mohammed Asmal, Corinne Luedemann, Christy Lavine, Linh V Mach, Harikrishnan Balachandran, Christie Brinkley, Thomas N Denny, Mark G Lewis, Hanne Anderson, Ranajit Pal, Devin Sok, Khoa Le, Matthias Pauthner, Beatrice H Hahn, George M Shaw, Michael S Seaman, Norman L Letvin, Dennis R Burton, Joseph G Sodroski, Barton F Haynes, Sampa Santra. Development of Simian-human Immunodeficiency Viruses with Transmitted/founder Clade C HIV-1 Envelopes. Virology, 2015 Jan 15;475: 37-45 doi: 10.1016/jvirol.2014.10.032 Epub 2014 Nov 22. PMID 25462344 PMCID PMC42810322

Daniel J Stieh, Deborah F King, Katja Klein, Pinghuang Liu, Xiaoying Shen, Kwan Ki Hwang, Barton Haynes, Punnee Pitisuttithum, Jaranit Kaewkungwal, Sorachai Nitayaphan, Supachai Rerks-Ngarm, Nelson Michael, Merlin Robb, Jerome Kim, Thomas N Denny, Georgia D Tomaras, Robin J Shattock, "Aggregate Complexes of HIV-1 Induced by Multimeric Antibodies". Retrovirology 2014 Oct 2;11:78; doi: 10.1186/212977-014-0078-8; published 2 October 2014. PMID: 25274446.

Staats J, Enzor J, Sanchez AM, Rountree W, Chan C, Jaimes M, Chan R, Gaur A, Denny TN, Weinhold KJ. Toward Development of a Comprehensive External Quality Assurance Program for Polyfunctional Intracellular Cytokine Staining Assays. J Immunol Methods. 2014 June 23. Pii: S0022-1759(14)00186-0. doi: 10.1016/j.jim2014.04.021. [Epub ahead of print] PMID: 24968072; NIHMSID: NIHMS613040.

Sarzotti-Kelsoe M, Daniell X, Todd CA, Bilska M, Martelli A, Labranche C, Perez LG, Ochsenbauer C, Kappes JC, Rountree W, Denny TN, Montefiori DC. Optimization and validation of a neutralizing antibody assay for HIV-1 in A3R5 cells. J Immunol Methods. 2014 Mar 6. pii: S0022-1759(14)00072-6. doi: 10.1016/j.jim.2014.02.013. [Epub ahead of print] PMID: 24607608; NIHMSID: NIHMS573725.

Sanchez AM, Demarco CT, Hora B, Keinonen S, Chen Y, Brinkley C, Stone M, Tobler L, Keating S, Schito M, Busch MP, Gao F, Denny TN. Development of a contemporary globally diverse HIV viral panel by the EQAPOL program. J Immunol Methods. 2014 Jan 19. pii: S0022-1759(14)00014-3. doi: 10.1016/j.jim.2014.01.004. [Epub ahead of print] PMID: 24447533; NIHMSID: NIHMS558894.

Sambor A, Garcia A, Berrong M, Pickeral J, Brown S, Rountree W, Sanchez A, Pollara J, Frahm N, Keinonen S, Kijak GH, Roederer M, Levine G, D'Souza MP, Jaimes M, Koup R, Denny T, Cox J, Ferrari G. Establishment and maintenance of a PBMC repository for functional cellular studies in support of clinical vaccine trials. J Immunol Methods. 2014 Apr 29. pii: S0022-1759(14)00122-7. doi: 10.1016/j.jim.2014.04.005. [Epub ahead of print] PMID: 24787274

Garcia A, Keinonen S, Sanchez AM, Ferrari G, Denny TN, Moody MA. Leukopak PBMC sample processing for preparing quality control material to support proficiency testing programs. J Immunol Methods. 2014 Jun 10. pii: S0022-1759(14)00181-1. doi: 10.1016/j.jim.2014.05.019. [Epub ahead of print] PMID: 24928650 NIHMSID 612767

Bainbridge J, Wilkening CL, Rountree W, Louzao R, Wong J, Perza N, Garcia A, Denny TN.The Immunology Quality Assessment Proficiency Testing Program for CD3 4 and CD3 8 lymphocyte subsets: A ten year review via longitudinal mixed effects modeling. J Immunol Methods. 2014 Jun 7. pii: S0022-1759(14)00179-3. doi: 10.1016/j.jim.2014.05.017. [Epub ahead of print NIHMSID #612773] PMID: 24911327; Publ ID: JIM11872/ NIHMSID: 610257.

Rountree W, Vandergrift N, Bainbridge J, Sanchez AM, Denny TN. Statistical methods for the assessment of EQAPOL proficiency testing: ELISpot, Luminex, and Flow Cytometry. J Immunol Methods. 2014 Jan 20. pii: S0022-1759(14)00017-9. doi: 10.1016/j.jim.2014.01.007. [Epub ahead of print] PMID: 24456626 NIHMSID 612774

Lynch HE, Sanchez AM, D'Souza MP, Rountree W, Denny TN, Kalos M, Sempowski GD. Development and implementation of a proficiency testing program for Luminex bead-based cytokine assays. J Immunol Methods. 2014 May 4. pii: S0022-1759(14)00128-8. doi: 10.1016/j.jim.2014.04.011. [Epub ahead of print] PMID: 24801479 NIHMSID # 612775

Richards Aj, Staats J, Enzor J, McKinnon K, Frelinger J, Denny TN, Weinhold KJ, Chan C. Setting objective thresholds for rare event detection in flow cytometry. J Immunol Methods. 2014 Apr 12. pii: S0022-1759(14)00118-5. doi: 10.1016/j.jim.2014.04.002. [Epub ahead of print] PMID 24727143 NIHMSID #61277

Sanchez AM, Rountree W, Berrong M, Garica A, Schuetz A, Cox J, Frahm N, Manak M, Sarzotti-Kelsoe M, D'Souza MP, Denny T, Ferrari G. The External Quality Assurance Oversight Laboratory (EQAPOL) proficiency program for IFN-gamma enzyme-linked immunospot (IFN-IFN-%u03B3 ELISpot) assay. J Immunol Methods. 2014 Mar 28. Pii: S0022-1759(14)00091-X. doi: 10.1016/j.jim.2014.03.017. [Epublished ahead of print] PMID 24685833 NIHMSID #612781

Sarzotti-Kelose M, Needham LK, Rountree W, Bainbridge J, Gray CM, Fiscus SA, Ferrari G, Stevens WS, Stager SL, Binz W, Louzao R, Long KO, Mokgotho P, Moodley N, Mackay M, Kerkau M, McMillion T, Kirchherr J, Soderberg KA, Haynes BF, Denny TN. The Center for HIV/AIDS Vaccine Immunology (CHAVI) multi-site quality assurance program for cryopreserved Human Periphral Blood Mononuclar Cells. J Immunol Methods 2014 June 5. Pii: S0022-1759(14)00175-6. Doi: 0.1016/j.jim.2014.05.013. [Epublished ahead of print] PMID 24910414 (with UM1 AI100645 CHAVI ID) NIHMSID #612785.

Sanchez AM, Denny TN, O'Gorman M. Introduction for JIM Special Issue: Building global resource programs to support HIV/AIDS clinical trial studies. J Immunol Methods 2014 June 6. Pii: S0022-1759(14)00178-1. Doi: 10.1016/j.jim2014.05.016 [Epublished ahead of print] PMID 24910413 NIHMSID #612793

Anna M Sanchez, C Todd DeMarco, Bhavna Hora, Sarah Keinonen, Yue Chen, Christie Brinkley, Mars Stone, Leslie Tobler, Sheila Keating, Marco Schito, Michael P Busch, Feng Gao, Thomas N Denny. "Development of a contemporary globally diverse HIV viral panel by the EQAPOL program". Journal of Immunological Methods (2014), 10.1015/ j.jim.2014.01.004; JIM-11786. PMID: 24447533 NIHMSID #612796

Marcella Sarzotti-Kelsoe, Ziaoju Daniell, Christopher A. Todd, Miroslawa Bilska, Amanda Martelli, Celia LaBranche, Lautaro G. Perez, Christina Ochsenbauer, John C. Kappes, Wes Rountree, Thomas N. Denny, David C. Montefiori. "Optimization and Validation of a Neutralizing Antibody Assay for HIV-1 in A3R5 cells". Journal of Immunological Methods; JIM 11812. PMID: 24607608 NIHMSID # 612798

Thomas B Kepler, Supriya Munshaw, Ruijun Zhang, Jae-Sung Yu, Christopher W Woods, Thomas N Denny, Georgia D Tomaras, S Munir Alam, M Anthony Moody, Garnet Kelsoe, Hua-Xin Liao, and Barton F Haynes, "Reconstructing a B-Cell Clonal Lineage. II. Mutation, Selection, and Affinity Maturation". Frontiers Immunology, 2014 April 22; 5: 170.doi: 10.3389/fimmu.2014.00170. PMID: 24795717, PMCID: PMC4001017.

Adam J. Richards, Janet Staats, Jennifer Enzor, Katherine McKinnon, Jacob Frelinger, Thomas N. Denny, Kent J. Weinhold, Cliburn Chan. "Setting objective thresholds for rare event detection in flow cytometry". PMID 24727143, J Immunol Methods. 2014 Apr 12, pii: S0022-159(14)00118-5. doi: 10.1015/j.jim.2014.04.002. PMID: 24727143; NIHMSID: NIHMS594212.

Kimberly A. Sollis, Pieter Smit, Susan Fiscus, Nathan Ford, Marco Vitoria, Shaffiq Essajee, David Barnett, Ben Cheng, Suzanne M. Crowe, Thomas Denny, Alan Landay, Wendy Stevens, Rosanna W. Peeling; "Systematic Review of the Performance of HIV Viral Load Technologies on Plasma Samples". Plos One, 2014 Feb 18; 9(2):384869. Doi: 10.1371. PMID 24558359: PMCID: PMC3928047.

Sarah Meyer, Daniel Westreich, Emily Patel, Elizabeth Ehlinger, Linda Kalilani, Rachel Lovingood, Thomas Denny, Geeta Swamy and Sallie Permar, "Postnatal cytomegalovirus exposure in infants of antiretroviral-treated and untreated HIV-infected mothers." Infectious Diseases in Obstetrics and Gynecology (Jan 2014); research article 989721. PMID: 24723745; PMCID: PMC3958696. PMCID: PMC3958696

Todd CA, Sanchez AM, Garcia A, Denny TN, Sarzotti-Kelsoe M. Implementation of Good Clinical Laboratory Practice (GCLP) guidelines within the External Quality Assurance Program Oversight Laboratory (EQAPOL).J Immunol Methods. 2013 Oct 9. pii: S0022-1759(13)00268-8. doi: 10.1016/j.jim.2013. 09.012. [Epub ahead of print] PMID: 24120573 NIHMS 612765