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    David Smith

    TitleProfessor
    SchoolUniversity of California, San Diego
    DepartmentMedicine
    Address9500 Gilman Drive #0679
    CA La Jolla 92093
    Phone858-642-1620
    vCardDownload vCard

      Collapse Biography 
      Collapse Education and Training
      University of California, San Diego School of Medicine, La Jolla, CAM.A.S. Clinical Research2005Infectious Diseases
      University of California, San Diego School of Medicine, La Jolla, CAFellow2003Infectious Diseases
      University of California, San Diego School of Medicine, La Jolla, CAChief Resident2000Internal Medicine
      University of California, San Diego School of Medicine, La Jolla, CAIntern and Resident1999Internal Medicine
      East Tennessee State University College of Medicine, Johnson City, TNM.D.1996Medicine
      University of Tennessee at Chattanooga, Chattanooga, TNB.S. summa cum laude1992Biology

      Collapse Overview 
      Collapse Overview
      Dr. Davey Smith is a translational research virologist. He uses basic science techniques to answer clinically relevant questions and vice-versa. He works both at the UCSD Antiviral Research Center and in his laboratory on the UCSD campus, where he performs bench research . His primary research focus is on the transmission of HIV, including HIV superinfection, molecular epidemiology and characterizing HIV shed from the genital tract. He also investigates the virologic correlates of end organ damage, like neuropathology, both domestically and abroad. These studies are in pursuit to understand the drivers of HIV transmission and disease and find new ways to interrupt them.

      Dr. Smith graduated from East Tennessee State University School of Medicine. He did his internship, residency and chief residency in Internal Medicine at University of California San Diego, and then he stayed at UCSD to complete his fellowship in Infectious Diseases. He joined UCSD faculty in 2003. He became Professor of Medicine in 2013, Co-Director of San Diego CFAR in 2013, Vice-Chair of Faculty in 2016 and Head of the UCSD Division of Infectious Diseases and Global Public Health in 2017.


      Collapse Research 
      Collapse Research Activities and Funding
      Revealing Reservoirs during Rebound (R3)
      NIH/NIAID P01AI131385Aug 1, 2017 - Jul 31, 2022
      Role: Principal Investigator
      Perturbing the HIV Reservoir with Immune Stimulation
      NIH/NIAID R01AI118422Feb 1, 2016 - Jan 31, 2021
      Role: Principal Investigator
      Characterizing proviral populations in brain tissues
      NIH/NIDA R21DA041007Sep 15, 2015 - Jul 31, 2018
      Role: Principal Investigator
      High-throughput Deep Sequencing Assay to Reliably Measure the HIV Reservoir during Antiretroviral Therapy
      NIH/NIAID R01AI120009Jul 1, 2015 - Dec 31, 2019
      Role: Principal Investigator
      Combined Testing to Identify Virologic Failure and HIV-1 Drug Resistance
      NIH/NIBIB R03EB015365Sep 30, 2014 - Aug 31, 2016
      Role: Principal Investigator
      Molecular Epidemiology for HIV Prevention for Drug Users and Other Risk Groups
      NIH/NIDA DP1DA034978Aug 1, 2012 - Jul 31, 2017
      Role: Principal Investigator
      Mentoring Translational Research in HIV
      NIH/NIAID K24AI100665May 1, 2012 - Apr 30, 2022
      Role: Principal Investigator
      Effects of Host and Viral Aging on Neurocognition
      NIH/NIMH R01MH097520Mar 5, 2012 - Dec 31, 2016
      Role: Principal Investigator
      Pooled Nucleic Acid Testing to Identify Antiretroviral Treatment Failure in India
      NIH/NIAID R21AI080353Apr 1, 2011 - Sep 30, 2013
      Role: Principal Investigator
      Interplay of B cells and HIV Leading to Broad Neutralizing Antibody Responses
      NIH U19AI090970Sep 1, 2010 - Aug 31, 2015
      Role: Co-Investigator
      A Multi-Site Investigation into the Effect of HIV Clade on Neurocognition
      NIH/NIMH R01MH083552Sep 8, 2008 - Aug 31, 2014
      Role: Principal Investigator
      Detection and Characterization of HIV-1 Intraclade Dual Infection
      NIH/NIAID R21AI077304Mar 1, 2008 - Feb 28, 2011
      Role: Principal Investigator
      Compartmentalization of HIV within the genital tract
      NIH/NIAID K23AI055276Jul 1, 2003 - Apr 30, 2008
      Role: Principal Investigator
      HIV Neurobehavioral Research Center
      NIH/NIMH P30MH062512Apr 24, 2001 - Feb 28, 2021
      Role: Co-Investigator
      Center for AIDS Research
      NIH/NIAID P30AI036214Apr 1, 1994 - Mar 31, 2018
      Role: Co-Investigator

      Collapse Bibliographic 
      Collapse Publications
      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
      List All   |   Timeline
      1. Wagner GA, Landais E, Caballero G, Phung P, Kosakovsky Pond SL, Poignard P, Richman DD, Little SJ, Smith D. Intrasubtype B HIV-1 Superinfection Correlates with Delayed Neutralizing Antibody Response. J Virol. 2017 Sep 01; 91(17). PMID: 28615205.
        View in: PubMed
      2. Chaillon A, Nakazawa M, Wertheim JO, Little SJ, Smith D, Mehta SR, Gianella S. No Substantial Evidence for Sexual Transmission of Minority HIV Drug Resistance Mutations in Men Who Have Sex with Men. J Virol. 2017 Aug 09. PMID: 28794047.
        View in: PubMed
      3. Oom AL, Smith D, Akrami K. Identification of putative unique immunogenic ZIKV and DENV1-4 peptides for diagnostic cellular based tests. Sci Rep. 2017 Jul 24; 7(1):6218. PMID: 28740150.
        View in: PubMed
      4. Choi JY, Pond SLK, Anderson CM, Richman DD, Smith D. Molecular Features of the V1-V4 Coding Region of Sexually Transmitted Human Immunodeficiency Virus Type 1. J Infect Dis. 2017 May 15; 215(10):1506-1513. PMID: 28419276.
        View in: PubMed
      5. Vesa J, Chaillon A, Wagner GA, Anderson CM, Richman DD, Smith D, Little SJ. Increased HIV-1 superinfection risk in carriers of specific human leukocyte antigen alleles. AIDS. 2017 May 15; 31(8):1149-1158. PMID: 28244954.
        View in: PubMed
      6. Ahn MY, Wertheim JO, Kim WJ, Kim SW, Lee JS, Ann HW, Jeon Y, Ahn JY, Song JE, Oh DH, Kim YC, Kim EJ, Jung IY, Kim MH, Jeong W, Jeong SJ, Ku NS, Kim JM, Smith D, Choi JY. Short Communication: HIV-1 Transmission Networks Across South Korea. AIDS Res Hum Retroviruses. 2017 Aug; 33(8):827-831. PMID: 28346838.
        View in: PubMed
      7. de Almeida SM, Rotta I, Ribeiro CE, Oliveira MF, Chaillon A, de Pereira AP, Cunha AP, Zonta M, Bents JF, Raboni SM, Smith D, Letendre S, Ellis RJ. Dynamic of CSF and serum biomarkers in HIV-1 subtype C encephalitis with CNS genetic compartmentalization-case study. J Neurovirol. 2017 Jun; 23(3):460-473. PMID: 28247269.
        View in: PubMed
      8. Chaillon A, Essat A, Frange P, Smith D, Delaugerre C, Barin F, Ghosn J, Pialoux G, Robineau O, Rouzioux C, Goujard C, Meyer L, Chaix ML. Spatiotemporal dynamics of HIV-1 transmission in France (1999-2014) and impact of targeted prevention strategies. Retrovirology. 2017 Feb 21; 14(1):15. PMID: 28222757.
        View in: PubMed
      9. Morris SR, Zhao M, Smith D, Vargas MV, Little SJ, Gianella S. Longitudinal Viral Dynamics in Semen During Early HIV Infection. Clin Infect Dis. 2017 02 15; 64(4):428-434. PMID: 28174909.
        View in: PubMed
      10. Glinka ER, Smith D, Johns ST. Now is the Time to Study the Timing of Influenza Vaccine. HIV Med. 2017 Jan 24. PMID: 28116796.
        View in: PubMed
      11. Green N, Hoenigl M, Chaillon A, Anderson CM, Kosakovsky Pond SL, Smith D, Little SJ. Partner services in adults with acute and early HIV infection. AIDS. 2017 Jan 14; 31(2):287-293. PMID: 27831950.
        View in: PubMed
      12. Wertheim JO, Kosakovsky Pond SL, Forgione LA, Mehta SR, Murrell B, Shah S, Smith D, Scheffler K, Torian LV. Social and Genetic Networks of HIV-1 Transmission in New York City. PLoS Pathog. 2017 Jan; 13(1):e1006000. PMID: 28068413.
        View in: PubMed
      13. Oliveira MF, Chaillon A, Nakazawa M, Vargas M, Letendre SL, Strain MC, Ellis RJ, Morris S, Little SJ, Smith D, Gianella S. Early Antiretroviral Therapy Is Associated with Lower HIV DNA Molecular Diversity and Lower Inflammation in Cerebrospinal Fluid but Does Not Prevent the Establishment of Compartmentalized HIV DNA Populations. PLoS Pathog. 2017 Jan; 13(1):e1006112. PMID: 28046096.
        View in: PubMed
      14. Gianella S, Taylor J, Brown TR, Kaytes A, Achim CL, Moore DJ, Little SJ, Ellis RJ, Smith D. Can research at the end of life be a useful tool to advance HIV cure? AIDS. 2017 Jan 02; 31(1):1-4. PMID: 27755112.
        View in: PubMed
      15. Chaillon A, Smith D, Vanpouille C, Lisco A, Jordan P, Caballero G, Vargas M, Gianella S, Mehta SR. HIV Trafficking Between Blood and Semen During Early Untreated HIV Infection. J Acquir Immune Defic Syndr. 2017 Jan 01; 74(1):95-102. PMID: 27548440.
        View in: PubMed
      16. Saravanan S, Kausalya B, Gomathi S, Sivamalar S, Pachamuthu B, Selvamuthu P, Pradeep A, Sunil S, Mothi SN, Smith D, Kantor R. Etravirine and Rilpivirine Drug Resistance Among HIV-1 Subtype C Infected Children Failing Non-Nucleoside Reverse Transcriptase Inhibitor-Based Regimens in South India. AIDS Res Hum Retroviruses. 2017 Jun; 33(6):567-574. PMID: 27869478.
        View in: PubMed
      17. Hu Y, Wan Z, Zhou YH, Smith D, Zheng YT, Zhang C. Identification of Two New HIV-1 Circulating Recombinant Forms (CRF87_cpx and CRF88_BC) from Reported Unique Recombinant Forms in Asia. AIDS Res Hum Retroviruses. 2017 Apr; 33(4):353-358. PMID: 27762598.
        View in: PubMed
      18. Wagner GA, Chaillon A, Liu S, Franklin DR, Caballero G, Kosakovsky Pond SL, Vaida F, Heaton RK, Letendre SL, Grant I, Richman DD, Smith D. HIV-associated neurocognitive disorder is associated with HIV-1 dual infection. AIDS. 2016 Nov 13; 30(17):2591-2597. PMID: 27536983.
        View in: PubMed
      19. de Almeida SM, Rotta I, Ribeiro CE, Smith D, Wang R, Judicello J, Potter M, Vaida F, Letendre S, Ellis RJ. Blood-CSF barrier and compartmentalization of CNS cellular immune response in HIV infection. J Neuroimmunol. 2016 Dec 15; 301:41-48. PMID: 27836178.
        View in: PubMed
      20. Karris MY, Umlauf A, Vaida F, Richman D, Little S, Smith D. A randomized controlled clinical trial on the impact of CCR5 blockade with maraviroc in early infection on T-cell dynamics. Medicine (Baltimore). 2016 Nov; 95(44):e5315. PMID: 27858912.
        View in: PubMed
      21. Bharti AR, McCutchan A, Deutsch R, Smith D, Ellis RJ, Cherner M, Woods SP, Heaton RK, Grant I, Letendre SL. Latent Toxoplasma Infection and Higher Toxoplasma gondii Immunoglobulin G Levels Are Associated With Worse Neurocognitive Functioning in HIV-Infected Adults. Clin Infect Dis. 2016 Dec 15; 63(12):1655-1660. PMID: 27794019.
        View in: PubMed
      22. Hoenigl M, Pérez-Santiago J, Nakazawa M, de Oliveira MF, Zhang Y, Finkelman MA, Letendre S, Smith D, Gianella S. (1?3)-ß-d-Glucan: A Biomarker for Microbial Translocation in Individuals with Acute or Early HIV Infection? Front Immunol. 2016; 7:404. PMID: 27752257.
        View in: PubMed
      23. Yek C, Gianella S, Plana M, Castro P, Scheffler K, García F, Massanella M, Smith D. Standard vaccines increase HIV-1 transcription during antiretroviral therapy. AIDS. 2016 Sep 24; 30(15):2289-98. PMID: 27427877.
        View in: PubMed
      24. Smith D, Nakazawa M, Freeman ML, Anderson CM, Oliveira MF, Little SJ, Gianella S. Asymptomatic CMV Replication During Early Human Immunodeficiency Virus (HIV) Infection Is Associated With Lower CD4/CD8 Ratio During HIV Treatment. Clin Infect Dis. 2016 Dec 01; 63(11):1517-1524. PMID: 27601222.
        View in: PubMed
      25. Chen X, Ye M, Duo L, Pang W, Smith D, Zhang C, Zheng YT. First description of two new HIV-1 recombinant forms CRF82_cpx and CRF83_cpx among drug users in Northern Myanmar. Virulence. 2017 Jul 04; 8(5):497-503. PMID: 27574950.
        View in: PubMed
      26. Chen X, Ye M, Pang W, Smith D, Zhang C, Zheng YT. First Appearance of HIV-1 CRF07_BC and CRF08_BC Outside China. AIDS Res Hum Retroviruses. 2017 Jan; 33(1):74-76. PMID: 27392826.
        View in: PubMed
      27. Hoenigl M, Chaillon A, Mehta SR, Smith D, Graff-Zivin J, Little SJ. Screening for acute HIV infection in community-based settings: Cost-effectiveness and impact on transmissions. J Infect. 2016 Nov; 73(5):476-484. PMID: 27521468.
        View in: PubMed
      28. Gianella S, Kosakovsky Pond SL, Oliveira MF, Scheffler K, Strain MC, De la Torre A, Letendre S, Smith D, Ellis RJ. Compartmentalized HIV rebound in the central nervous system after interruption of antiretroviral therapy. Virus Evol. 2016 Jul; 2(2):vew020. PMID: 27774305.
        View in: PubMed
      29. Günthard HF, Saag MS, Benson CA, del Rio C, Eron JJ, Gallant JE, Hoy JF, Mugavero MJ, Sax PE, Thompson MA, Gandhi RT, Landovitz RJ, Smith D, Jacobsen DM, Volberding PA. Antiretroviral Drugs for Treatment and Prevention of HIV Infection in Adults: 2016 Recommendations of the International Antiviral Society-USA Panel. JAMA. 2016 Jul 12; 316(2):191-210. PMID: 27404187; PMCID: PMC5012643.
      30. de Almeida SM, Rotta I, Jiang Y, Li X, Raboni SM, Ribeiro CE, Smith D, Potter M, Vaida F, Letendre S, Ellis RJ. Biomarkers of chemotaxis and inflammation in cerebrospinal fluid and serum in individuals with HIV-1 subtype C versus B. J Neurovirol. 2016 Dec; 22(6):715-724. PMID: 27400932.
        View in: PubMed
      31. Zhao J, Chen L, Chaillon A, Zheng C, Cai W, Yang Z, Li G, Gan Y, Wang X, Hu Y, Zhong P, Zhang C, Smith D. The dynamics of the HIV epidemic among men who have sex with men (MSM) from 2005 to 2012 in Shenzhen, China. Sci Rep. 2016 Jun 29; 6:28703. PMID: 27352965; PMCID: PMC4926087.
      32. Chaillon A, Hoenigl M, Mehta SR, Weibel N, Little SJ, Smith D. A practical online tool to estimate antiretroviral coverage for HIV infected and susceptible populations needed to reduce local HIV epidemics. Sci Rep. 2016 Jun 24; 6:28707. PMID: 27337983; PMCID: PMC4919622.
      33. Dan JM, Massanella M, Smith D, Spina CA, Schrier R, Daar ES, Dube MP, Morris SR, Gianella S. Brief Report: Effect of CMV and HIV Transcription on CD57 and PD-1 T-Cell Expression During Suppressive ART. J Acquir Immune Defic Syndr. 2016 Jun 01; 72(2):133-7. PMID: 26818740; PMCID: PMC4868660.
      34. Marquine MJ, Montoya JL, Umlauf A, Fazeli PL, Gouaux B, Heaton RK, Ellis RJ, Letendre SL, Grant I, Moore DJ. The Veterans Aging Cohort Study (VACS) Index and Neurocognitive Change: A Longitudinal Study. Clin Infect Dis. 2016 Sep 01; 63(5):694-702. PMID: 27199461; PMCID: PMC4981756 [Available on 09/01/17].
      35. Mehta SR, Murrell B, Anderson CM, Kosakovsky Pond SL, Wertheim JO, Young JA, Freitas L, Richman DD, Mathews WC, Scheffler K, Little SJ, Smith D. Using HIV Sequence and Epidemiologic Data to Assess the Effect of Self-referral Testing for Acute HIV Infection on Incident Diagnoses in San Diego, California. Clin Infect Dis. 2016 Jul 01; 63(1):101-107. PMID: 27174704; PMCID: PMC4901863 [Available on 07/01/17].
      36. Ann HW, Jun S, Shin NY, Han S, Ahn JY, Ahn MY, Jeon YD, Jung IY, Kim MH, Jeong WY, Ku NS, Kim JM, Smith D, Choi JY. Characteristics of Resting-State Functional Connectivity in HIV-Associated Neurocognitive Disorder. PLoS One. 2016; 11(4):e0153493. PMID: 27104345; PMCID: PMC4841538.
      37. Hoenigl M, Chaillon A, Moore DJ, Morris SR, Smith D, Little SJ. Clear Links Between Starting Methamphetamine and Increasing Sexual Risk Behavior: A Cohort Study Among Men Who Have Sex With Men. J Acquir Immune Defic Syndr. 2016 Apr 15; 71(5):551-7. PMID: 26536321; PMCID: PMC4788567 [Available on 04/15/17].
      38. Chin BS, Chaillon A, Mehta SR, Wertheim JO, Kim G, Shin HS, Smith D. Molecular epidemiology identifies HIV transmission networks associated with younger age and heterosexual exposure among Korean individuals. J Med Virol. 2016 Oct; 88(10):1832-5. PMID: 26990771.
        View in: PubMed
      39. Gianella S, Anderson CM, Var SR, Oliveira MF, Lada SM, Vargas MV, Massanella M, Little SJ, Richman DD, Strain MC, Pérez-Santiago J, Smith D. Replication of Human Herpesviruses Is Associated with Higher HIV DNA Levels during Antiretroviral Therapy Started at Early Phases of HIV Infection. J Virol. 2016 Apr; 90(8):3944-52. PMID: 26842469; PMCID: PMC4810527.
      40. Var SR, Day TR, Vitomirov A, Smith D, Soontornniyomkij V, Moore DJ, Achim CL, Mehta SR, Pérez-Santiago J. Mitochondrial injury and cognitive function in HIV infection and methamphetamine use. AIDS. 2016 Mar 27; 30(6):839-48. PMID: 26807965.
        View in: PubMed
      41. Turner SS, Gianella S, Yip MJ, van Seggelen WO, Gillies RD, Foster AL, Barbati ZR, Smith D, Fierer DS. Shedding of Hepatitis C Virus in Semen of Human Immunodeficiency Virus-Infected Men. Open Forum Infect Dis. 2016 Mar; 3(2):ofw057. PMID: 27186582; PMCID: PMC4866572.
      42. Hoenigl M, Green N, Camacho M, Gianella S, Mehta SR, Smith D, Little SJ. Signs or Symptoms of Acute HIV Infection in a Cohort Undergoing Community-Based Screening. Emerg Infect Dis. 2016 Mar; 22(3):532-4. PMID: 26890854; PMCID: PMC4766914.
      43. Geiger R, Smith D, Little SJ, Mehta SR. Validation of the GeneXpert® CT/NG Assay for use with Male Pharyngeal and Rectal Swabs. Austin J HIV AIDS Res. 2016; 3(1). PMID: 27536736.
        View in: PubMed
      44. Panichsillapakit T, Smith D, Wertheim JO, Richman DD, Little SJ, Mehta SR. Prevalence of Transmitted HIV Drug Resistance Among Recently Infected Persons in San Diego, CA 1996-2013. J Acquir Immune Defic Syndr. 2016 Feb 01; 71(2):228-36. PMID: 26413846; PMCID: PMC4712087 [Available on 02/01/17].
      45. Panichsillapakit T, Patel D, Santangelo J, Richman DD, Little SJ, Smith D. Colorectal Disorders in Acute Human Immunodeficiency Virus Infection: A Case Series. Open Forum Infect Dis. 2016 Jan; 3(1):ofw014. PMID: 26925432; PMCID: PMC4766383.
      46. Glinka ER, Smith D, Johns ST. Timing Matters - Influenza Vaccination to HIV-Infected Patients. HIV Med. 2016 Sep; 17(8):601-4. PMID: 26810556; PMCID: PMC4960000 [Available on 09/01/17].
      47. Vanpouille C, Introini A, Morris SR, Margolis L, Daar ES, Dube MP, Little SJ, Smith D, Lisco A, Gianella S. Distinct cytokine/chemokine network in semen and blood characterize different stages of HIV infection. AIDS. 2016 Jan; 30(2):193-201. PMID: 26558730; PMCID: PMC4862605 [Available on 01/01/17].
      48. Geiger R, Smith D, Little SJ, Mehta SR. RETRACTED: Investigation of the GeneXpert® CT/NG assay for use with male pharyngeal and rectal swabs. Int J STD AIDS. 2016 Jan 01; 956462416665059. PMID: 27510643.
        View in: PubMed
      49. Shi Y, Wang J, Wang Y, Wang A, Guo H, Wei F, Mehta SR, Espitia S, Smith D, Liu L, Zhang Y, Chen D. A novel mutant 10Ala/Arg together with mutant 144Ser/Arg of hepatitis B virus X protein involved in hepatitis B virus-related hepatocarcinogenesis in HepG2 cell lines. Cancer Lett. 2016 Feb 28; 371(2):285-91. PMID: 26706415; PMCID: PMC4934374 [Available on 02/28/17].
      50. de Oliveira MF, Murrell B, Murrel B, Pérez-Santiago J, Vargas M, Ellis RJ, Letendre S, Grant I, Smith D, Woods SP, Gianella S. Circulating HIV DNA Correlates With Neurocognitive Impairment in Older HIV-infected Adults on Suppressive ART. Sci Rep. 2015 Nov 25; 5:17094. PMID: 26603568; PMCID: PMC4658529.
      51. Tilghman M, Tsai D, Buene TP, Tomas M, Amade S, Gehlbach D, Chang S, Ignacio C, Caballero G, Espitia S, May S, Noormahomed EV, Smith D. Pooled Nucleic Acid Testing to Detect Antiretroviral Treatment Failure in HIV-Infected Patients in Mozambique. J Acquir Immune Defic Syndr. 2015 Nov 01; 70(3):256-61. PMID: 26135327; PMCID: PMC4607635 [Available on 11/01/16].
      52. Gianella S, Anderson CM, Richman DD, Smith D, Little SJ. No evidence of posttreatment control after early initiation of antiretroviral therapy. AIDS. 2015 Oct 23; 29(16):2093-7. PMID: 26544575; PMCID: PMC4638137 [Available on 10/23/16].
      53. de Oliveira MF, Gianella S, Letendre S, Scheffler K, Kosakovsky Pond SL, Smith D, Strain M, Ellis RJ. Comparative Analysis of Cell-Associated HIV DNA Levels in Cerebrospinal Fluid and Peripheral Blood by Droplet Digital PCR. PLoS One. 2015; 10(10):e0139510. PMID: 26431315; PMCID: PMC4592012.
      54. Pérez-Santiago J, Schrier RD, de Oliveira MF, Gianella S, Var SR, Day TR, Ramirez-Gaona M, Suben JD, Murrell B, Massanella M, Cherner M, Smith D, Ellis RJ, Letendre SL, Mehta SR. Cell-free mitochondrial DNA in CSF is associated with early viral rebound, inflammation, and severity of neurocognitive deficits in HIV infection. J Neurovirol. 2016 Apr; 22(2):191-200. PMID: 26428514; PMCID: PMC4862614 [Available on 04/01/17].
      55. Choi JY, Chaillon A, Oh JO, Ahn JY, Ann HW, Jung IY, Ahn MY, Jeon YD, Ku NS, Smith D, Kim JM. HIV migration between blood plasma and cellular subsets before and after HIV therapy. J Med Virol. 2016 Apr; 88(4):606-13. PMID: 26348372; PMCID: PMC4731240 [Available on 04/01/17].
      56. Hoenigl M, Anderson CM, Green N, Mehta SR, Smith D, Little SJ. Repeat HIV-testing is associated with an increase in behavioral risk among men who have sex with men: a cohort study. BMC Med. 2015 Sep 11; 13:218. PMID: 26444673; PMCID: PMC4596465.
      57. Day TR, Smith D, Heaton RK, Franklin D, Tilghman MW, Letendre S, Jin H, Wu Z, Shi C, Yu X, Pérez-Santiago J. Subtype associations with HIV-associated neurocognitive disorder in China. J Neurovirol. 2016 Apr; 22(2):246-50. PMID: 26306690; PMCID: PMC4769127 [Available on 04/01/17].
      58. Massanella M, Gianella S, Schrier R, Dan JM, Pérez-Santiago J, Oliveira MF, Richman DD, Little SJ, Benson CA, Daar ES, Dube MP, Haubrich RH, Smith D, Morris SR. Methamphetamine Use in HIV-infected Individuals Affects T-cell Function and Viral Outcome during Suppressive Antiretroviral Therapy. Sci Rep. 2015 Aug 24; 5:13179. PMID: 26299251; PMCID: PMC4547398.
      59. Smith D. What Can We Learn From Measles? No New HIV Infections. Top Antivir Med. 2015 Aug-Sep; 23(3):108-10. PMID: 26518393.
        View in: PubMed
      60. Li JZ, Smith D, Mellors JW. The need for treatment interruption studies and biomarker identification in the search for an HIV cure. AIDS. 2015 Jul 31; 29(12):1429-32. PMID: 25870989; PMCID: PMC4529360.
      61. Mehta SR, Wertheim JO, Brouwer KC, Wagner KD, Chaillon A, Strathdee S, Patterson TL, Rangel MG, Vargas M, Murrell B, Garfein R, Little SJ, Smith D. HIV Transmission Networks in the San Diego-Tijuana Border Region. EBioMedicine. 2015 Oct; 2(10):1456-63. PMID: 26629540; PMCID: PMC4634195.
      62. Gianella S, Scheffler K, Mehta SR, Little SJ, Freitas L, Morris SR, Smith D. Seminal Shedding of CMV and HIV Transmission among Men Who Have Sex with Men. Int J Environ Res Public Health. 2015 Jul 07; 12(7):7585-92. PMID: 26198239; PMCID: PMC4515676.
      63. Wang X, Wu Y, Mao L, Xia W, Zhang W, Dai L, Mehta SR, Wertheim JO, Dong X, Zhang T, Wu H, Smith D. Targeting HIV Prevention Based on Molecular Epidemiology Among Deeply Sampled Subnetworks of Men Who Have Sex With Men. Clin Infect Dis. 2015 Nov 01; 61(9):1462-8. PMID: 26129754; PMCID: PMC4599390 [Available on 11/01/16].
      64. Gianella S, Smith D, Daar ES, Dube MP, Lisco A, Vanpouille C, Margolis L, Haubrich RH, Morris SR. Genital Cytomegalovirus Replication Predicts Syphilis Acquisition among HIV-1 Infected Men Who Have Sex with Men. PLoS One. 2015; 10(6):e0130410. PMID: 26061824; PMCID: PMC4465639.
      65. Dillon SM, Lee EJ, Kotter CV, Austin GL, Gianella S, Siewe B, Smith D, Landay AL, McManus MC, Robertson CE, Frank DN, McCarter MD, Wilson CC. Gut dendritic cell activation links an altered colonic microbiome to mucosal and systemic T-cell activation in untreated HIV-1 infection. Mucosal Immunol. 2016 Jan; 9(1):24-37. PMID: 25921339; PMCID: PMC4626441.
      66. Saravanan S, Gomathi S, Kausalya B, Boobalan J, Murugavel KG, Balakrishnan P, Mothi SN, Solomon SS, Kumarasamy N, Selvamuthu P, Solomon S, Smith D. Differences in Evolution of HIV-1 Subtype C Reverse Transcriptase Between Children and Adults Likely Explained by Maturity of Cytotoxic T-Lymphocyte Responses. AIDS Res Hum Retroviruses. 2015 Jun; 31(6):655-7. PMID: 25839730; PMCID: PMC4458742.
      67. Chin BS, Shin HS, Kim G, Wagner GA, Gianella S, Smith D. Short Communication: Increase of HIV-1 K103N Transmitted Drug Resistance and Its Association with Efavirenz Use in South Korea. AIDS Res Hum Retroviruses. 2015 Jun; 31(6):603-7. PMID: 25826122; PMCID: PMC4516954.
      68. Hoenigl M, Weibel N, Mehta SR, Anderson CM, Jenks J, Green N, Gianella S, Smith D, Little SJ. Development and validation of the San Diego Early Test Score to predict acute and early HIV infection risk in men who have sex with men. Clin Infect Dis. 2015 Aug 01; 61(3):468-75. PMID: 25904374; PMCID: PMC4542926.
      69. Rhee SY, Blanco JL, Jordan MR, Taylor J, Lemey P, Varghese V, Hamers RL, Bertagnolio S, Rinke de Wit TF, Aghokeng AF, Albert J, Avi R, Avila-Rios S, Bessong PO, Brooks JI, Boucher CA, Brumme ZL, Busch MP, Bussmann H, Chaix ML, Chin BS, D'Aquin TT, De Gascun CF, Derache A, Descamps D, Deshpande AK, Djoko CF, Eshleman SH, Fleury H, Frange P, Fujisaki S, Harrigan PR, Hattori J, Holguin A, Hunt GM, Ichimura H, Kaleebu P, Katzenstein D, Kiertiburanakul S, Kim JH, Kim SS, Li Y, Lutsar I, Morris L, Ndembi N, Ng KP, Paranjape RS, Peeters M, Poljak M, Price MA, Ragonnet-Cronin ML, Reyes-Terán G, Rolland M, Sirivichayakul S, Smith D, Soares MA, Soriano VV, Ssemwanga D, Stanojevic M, Stefani MA, Sugiura W, Sungkanuparph S, Tanuri A, Tee KK, Truong HM, van de Vijver DA, Vidal N, Yang C, Yang R, Yebra G, Ioannidis JP, Vandamme AM, Shafer RW. Geographic and temporal trends in the molecular epidemiology and genetic mechanisms of transmitted HIV-1 drug resistance: an individual-patient- and sequence-level meta-analysis. PLoS Med. 2015 Apr; 12(4):e1001810. PMID: 25849352; PMCID: PMC4388826.
      70. Gianella S, Massanella M, Wertheim JO, Smith D. The Sordid Affair Between Human Herpesvirus and HIV. J Infect Dis. 2015 Sep 15; 212(6):845-52. PMID: 25748324; PMCID: PMC4548466.
      71. Murrell B, Weaver S, Smith MD, Wertheim JO, Murrell S, Aylward A, Eren K, Pollner T, Martin DP, Smith D, Scheffler K, Kosakovsky Pond SL. Gene-wide identification of episodic selection. Mol Biol Evol. 2015 May; 32(5):1365-71. PMID: 25701167; PMCID: PMC4408417.
      72. Smith D, Wertheim JO, Weaver S, Murrell B, Scheffler K, Kosakovsky Pond SL. Less is more: an adaptive branch-site random effects model for efficient detection of episodic diversifying selection. Mol Biol Evol. 2015 May; 32(5):1342-53. PMID: 25697341; PMCID: PMC4408413.
      73. Heaton RK, Franklin DR, Deutsch R, Letendre SL, Ellis RJ, Casaletto K, Marquine MJ, Woods SP, Vaida F, Atkinson JH, Marcotte TD, McCutchan JA, Collier AC, Marra CM, Clifford DB, Gelman BB, Sacktor N, Morgello S, Simpson DM, Abramson I, Gamst A, Fennema-Notestine C, Smith D, Grant I. Reply to Haddow et al. Clin Infect Dis. 2015 May 01; 60(9):1442-3. PMID: 25645217; PMCID: PMC4415055.
      74. Okulicz JF, Le TD, Agan BK, Camargo JF, Landrum ML, Wright E, Dolan MJ, Ganesan A, Ferguson TM, Smith D, Richman DD, Little SJ, Clark RA, He W, Ahuja SK. Influence of the timing of antiretroviral therapy on the potential for normalization of immune status in human immunodeficiency virus 1-infected individuals. JAMA Intern Med. 2015 Jan; 175(1):88-99. PMID: 25419650; PMCID: PMC4286496.
      75. Ene L, Duiculescu D, Tardei G, Ruta S, Smith D, Mehta S, Letendre S, Achim CL. Hepatitis B virus compartmentalization in the cerebrospinal fluid of HIV-infected patients. Clin Microbiol Infect. 2015 Apr; 21(4):387.e5-8. PMID: 25658525; PMCID: PMC4424164.
      76. Fisher RG, Smith D, Murrell B, Slabbert R, Kirby BM, Edson C, Cotton MF, Haubrich RH, Kosakovsky Pond SL, Van Zyl GU. Next generation sequencing improves detection of drug resistance mutations in infants after PMTCT failure. J Clin Virol. 2015 Jan; 62:48-53. PMID: 25542470; PMCID: PMC4279108.
      77. Carter CC, Wagner GA, Hightower GK, Caballero G, Phung P, Richman DD, Pond SL, Smith D. HIV-1 neutralizing antibody response and viral genetic diversity characterized with next generation sequencing. Virology. 2015 Jan 01; 474:34-40. PMID: 25463602; PMCID: PMC4259848.
      78. Heaton RK, Franklin DR, Deutsch R, Letendre S, Ellis RJ, Casaletto K, Marquine MJ, Woods SP, Vaida F, Atkinson JH, Marcotte TD, McCutchan JA, Collier AC, Marra CM, Clifford DB, Gelman BB, Sacktor N, Morgello S, Simpson DM, Abramson I, Gamst AC, Fennema-Notestine C, Smith D, Grant I. Neurocognitive change in the era of HIV combination antiretroviral therapy: the longitudinal CHARTER study. Clin Infect Dis. 2015 Feb 01; 60(3):473-80. PMID: 25362201; PMCID: PMC4303775.
      79. Hepler NL, Scheffler K, Weaver S, Murrell B, Richman DD, Burton DR, Poignard P, Smith D, Kosakovsky Pond SL. IDEPI: rapid prediction of HIV-1 antibody epitopes and other phenotypic features from sequence data using a flexible machine learning platform. PLoS Comput Biol. 2014 Sep; 10(9):e1003842. PMID: 25254639; PMCID: PMC4177671.
      80. King HL, Keller SB, Giancola MA, Rodriguez DA, Chau JJ, Young JA, Little SJ, Smith D. Pre-exposure prophylaxis accessibility research and evaluation (PrEPARE Study). AIDS Behav. 2014 Sep; 18(9):1722-5. PMID: 25017425; PMCID: PMC4127131.
      81. Desplats P, Dumaop W, Cronin P, Gianella S, Woods S, Letendre S, Smith D, Masliah E, Grant I. Epigenetic alterations in the brain associated with HIV-1 infection and methamphetamine dependence. PLoS One. 2014; 9(7):e102555. PMID: 25054922; PMCID: PMC4108358.
      82. Rotta I, Raboni SM, Ribeiro CE, Riedel M, Winhescki Mda G, Smith D, Ellis RJ, de Almeida SM. Cerebrospinal fluid can be used for HIV genotyping when it fails in blood. Arq Neuropsiquiatr. 2014 Jul; 72(7):506-9. PMID: 25054982; PMCID: PMC4139176.
      83. Wertheim JO, Smith MD, Smith D, Scheffler K, Kosakovsky Pond SL. Evolutionary origins of human herpes simplex viruses 1 and 2. Mol Biol Evol. 2014 Sep; 31(9):2356-64. PMID: 24916030; PMCID: PMC4137711.
      84. Little SJ, Kosakovsky Pond SL, Anderson CM, Young JA, Wertheim JO, Mehta SR, May S, Smith D. Using HIV networks to inform real time prevention interventions. PLoS One. 2014; 9(6):e98443. PMID: 24901437; PMCID: PMC4047027.
      85. Orlov M, Vaida F, Williamson K, Deng Q, Smith D, Duffy PE, Schooley RT. Antigen-presenting phagocytic cells ingest malaria parasites and increase HIV replication in a tumor necrosis factor a-dependent manner. J Infect Dis. 2014 Nov 15; 210(10):1562-72. PMID: 24903666; PMCID: PMC4215075.
      86. Jeong SJ, Kim MH, Song JE, Ahn JY, Kim SB, Ann HW, Kim JK, Choi H, Ku NS, Han SH, Kim JM, Smith D, Kim HS, Choi JY. Short communication: prospective comparison of qualitative versus quantitative polymerase chain reaction for monitoring virologic treatment failure in HIV-infected patients. AIDS Res Hum Retroviruses. 2014 Aug; 30(8):827-9. PMID: 24724838; PMCID: PMC4118713.
      87. Grant I, Franklin DR, Deutsch R, Woods SP, Vaida F, Ellis RJ, Letendre SL, Marcotte TD, Atkinson JH, Collier AC, Marra CM, Clifford DB, Gelman BB, McArthur JC, Morgello S, Simpson DM, McCutchan JA, Abramson I, Gamst A, Fennema-Notestine C, Smith D, Heaton RK. Asymptomatic HIV-associated neurocognitive impairment increases risk for symptomatic decline. Neurology. 2014 Jun 10; 82(23):2055-62. PMID: 24814848; PMCID: PMC4118496.
      88. Gianella S, Massanella M, Richman DD, Little SJ, Spina CA, Vargas MV, Lada SM, Daar ES, Dube MP, Haubrich RH, Morris SR, Smith D. Cytomegalovirus replication in semen is associated with higher levels of proviral HIV DNA and CD4+ T cell activation during antiretroviral treatment. J Virol. 2014 Jul; 88(14):7818-27. PMID: 24789781; PMCID: PMC4097769.
      89. Karris MY, Kao YT, Patel D, Dawson M, Woods SP, Vaida F, Spina C, Richman D, Little S, Smith D. Predictors of virologic response in persons who start antiretroviral therapy during recent HIV infection. AIDS. 2014 Mar 27; 28(6):841-9. PMID: 24401640; PMCID: PMC4049563.
      90. Kim SB, Yoon M, Ku NS, Kim MH, Song JE, Ahn JY, Jeong SJ, Kim C, Kwon HD, Lee J, Smith D, Choi JY. Mathematical modeling of HIV prevention measures including pre-exposure prophylaxis on HIV incidence in South Korea. PLoS One. 2014; 9(3):e90080. PMID: 24662776; PMCID: PMC3963840.
      91. Ku NS, Lee Y, Ahn JY, Song JE, Kim MH, Kim SB, Jeong SJ, Hong KW, Kim E, Han SH, Song JY, Cheong HJ, Song YG, Kim WJ, Kim JM, Smith D, Choi JY. HIV-associated neurocognitive disorder in HIV-infected Koreans: the Korean NeuroAIDS Project. HIV Med. 2014 Sep; 15(8):470-7. PMID: 24580888; PMCID: PMC4140963.
      92. Tilghman MW, Pérez-Santiago J, Osorio G, Little SJ, Richman DD, Mathews WC, Haubrich RH, Smith D. Community HIV-1 drug resistance is associated with transmitted drug resistance. HIV Med. 2014 Jul; 15(6):339-46. PMID: 24417811; PMCID: PMC4055747.
      93. Dillon SM, Lee EJ, Kotter CV, Austin GL, Dong Z, Hecht DK, Gianella S, Siewe B, Smith D, Landay AL, Robertson CE, Frank DN, Wilson CC. An altered intestinal mucosal microbiome in HIV-1 infection is associated with mucosal and systemic immune activation and endotoxemia. Mucosal Immunol. 2014 Jul; 7(4):983-94. PMID: 24399150; PMCID: PMC4062575.
      94. Noormahomed EV, Mocumbi AO, Preziosi M, Damasceno A, Bickler S, Smith D, Funzamo C, Aronoff-Spencer E, Badaró R, Mabila F, Bila D, Nguenha A, Do Rosário V, Benson CA, Schooley RT, Patel S, Ferrão LJ, Carrilho C. Strengthening research capacity through the medical education partnership initiative: the Mozambique experience. Hum Resour Health. 2013 Dec 05; 11:62. PMID: 24304706; PMCID: PMC3895849.
      95. Chaillon A, Gianella S, Wertheim JO, Richman DD, Mehta SR, Smith D. HIV migration between blood and cerebrospinal fluid or semen over time. J Infect Dis. 2014 May 15; 209(10):1642-52. PMID: 24302756; PMCID: PMC3997580.
      96. Doyle KL, Morgan EE, Morris S, Smith D, Little S, Iudicello JE, Blackstone K, Moore DJ, Grant I, Letendre SL, Woods SP. Real-world impact of neurocognitive deficits in acute and early HIV infection. J Neurovirol. 2013 Dec; 19(6):565-73. PMID: 24277439; PMCID: PMC3865175.
      97. de Almeida SM, Ribeiro CE, de Pereira AP, Badiee J, Cherner M, Smith D, Maich I, Raboni SM, Rotta I, Barbosa FJ, Heaton RK, Umlauf A, Ellis RJ. Neurocognitive impairment in HIV-1 clade C- versus B-infected individuals in Southern Brazil. J Neurovirol. 2013 Dec; 19(6):550-6. PMID: 24277437; PMCID: PMC3923762.
      98. Wagner GA, Pacold ME, Kosakovsky Pond SL, Caballero G, Chaillon A, Rudolph AE, Morris SR, Little SJ, Richman DD, Smith D. Incidence and prevalence of intrasubtype HIV-1 dual infection in at-risk men in the United States. J Infect Dis. 2014 Apr 01; 209(7):1032-8. PMID: 24273040; PMCID: PMC3952674.
      99. Kim SB, Kim HW, Kim HS, Ann HW, Kim JK, Choi H, Kim MH, Song JE, Ahn JY, Ku NS, Oh DH, Kim YC, Jeong SJ, Han SH, Kim JM, Smith D, Choi JY. Pooled nucleic acid testing to identify antiretroviral treatment failure during HIV infection in Seoul, South Korea. Scand J Infect Dis. 2014 Feb; 46(2):136-40. PMID: 24228824; PMCID: PMC3894056.
      100. Tatro ET, Purnajo I, Richman DD, Smith D, Gianella S. Antibody response to Achromobacter xylosoxidans during HIV infection is associated with lower CD4 levels and increased lymphocyte activation. Clin Vaccine Immunol. 2014 Jan; 21(1):46-50. PMID: 24173027; PMCID: PMC3910916.
      101. Tilghman MW, Bhattacharya J, Deshpande S, Ghate M, Espitia S, Grant I, Marcotte TD, Smith D, Mehendale S. Genetic attributes of blood-derived subtype-C HIV-1 tat and env in India and neurocognitive function. J Med Virol. 2014 Jan; 86(1):88-96. PMID: 24150902; PMCID: PMC3872113.
      102. Wertheim JO, Leigh Brown AJ, Hepler NL, Mehta SR, Richman DD, Smith D, Kosakovsky Pond SL. The global transmission network of HIV-1. J Infect Dis. 2014 Jan 15; 209(2):304-13. PMID: 24151309; PMCID: PMC3873788.
      103. Chaillon A, Gianella S, Vazquez H, Ignacio C, Zweig AC, Richman DD, Smith D. Novel codon insert in HIV type 1 clade B reverse transcriptase associated with low-level viremia during antiretroviral therapy. AIDS Res Hum Retroviruses. 2014 Feb; 30(2):165-9. PMID: 24020934; PMCID: PMC3910474.
      104. Morris SR, Woods SP, Deutsch R, Little SJ, Wagner G, Morgan EE, Heaton RK, Letendre SL, Grant I, Smith D. Dual-mixed HIV-1 coreceptor tropism and HIV-associated neurocognitive deficits. J Neurovirol. 2013 Oct; 19(5):488-94. PMID: 24078557; PMCID: PMC3921071.
      105. Chaillon A, Wagner GA, Hepler NL, Little SJ, Kosakovsky Pond SL, Caballero G, Pacold ME, Phung P, Wrin T, Richman DD, Wertheim JO, Smith D. Dynamics of viral evolution and neutralizing antibody response after HIV-1 superinfection. J Virol. 2013 Dec; 87(23):12737-44. PMID: 24049166; PMCID: PMC3838120.
      106. Gianella S, Morris SR, Tatro E, Vargas MV, Haubrich RH, Daar ES, Dube MP, Richman DD, Little SJ, Smith D. Virologic correlates of anti-CMV IgG levels in HIV-1-infected men. J Infect Dis. 2014 Feb 01; 209(3):452-6. PMID: 23964106; PMCID: PMC3883163.
      107. Pérez-Santiago J, Gianella S, Massanella M, Spina CA, Karris MY, Var SR, Patel D, Jordan PS, Young JA, Little SJ, Richman DD, Smith D. Gut Lactobacillales are associated with higher CD4 and less microbial translocation during HIV infection. AIDS. 2013 Jul 31; 27(12):1921-31. PMID: 24180001; PMCID: PMC3816380.
      108. Hightower GK, May SJ, Pérez-Santiago J, Pacold ME, Wagner GA, Little SJ, Richman DD, Mehta SR, Smith D, Pond SL. HIV-1 clade B pol evolution following primary infection. PLoS One. 2013; 8(6):e68188. PMID: 23840830; PMCID: PMC3695957.
      109. Tang MW, Rhee SY, Bertagnolio S, Ford N, Holmes S, Sigaloff KC, Hamers RL, de Wit TF, Fleury HJ, Kanki PJ, Ruxrungtham K, Hawkins CA, Wallis CL, Stevens W, van Zyl GU, Manosuthi W, Hosseinipour MC, Ngo-Giang-Huong N, Belec L, Peeters M, Aghokeng A, Bunupuradah T, Burda S, Cane P, Cappelli G, Charpentier C, Dagnra AY, Deshpande AK, El-Katib Z, Eshleman SH, Fokam J, Gody JC, Katzenstein D, Koyalta DD, Kumwenda JJ, Lallemant M, Lynen L, Marconi VC, Margot NA, Moussa S, Ndung'u T, Nyambi PN, Orrell C, Schapiro JM, Schuurman R, Sirivichayakul S, Smith D, Zolfo M, Jordan MR, Shafer RW. Nucleoside reverse transcriptase inhibitor resistance mutations associated with first-line stavudine-containing antiretroviral therapy: programmatic implications for countries phasing out stavudine. J Infect Dis. 2013 Jun 15; 207 Suppl 2:S70-7. PMID: 23687292; PMCID: PMC3657117.
      110. Saravanan S, Madhavan V, Velu V, Murugavel KG, Waldrop G, Solomon SS, Balakrishnan P, Kumarasamy N, Smith D, Mayer KH, Solomon S, Thyagarajan SP. High prevalence of hepatitis delta virus among patients with chronic hepatitis B virus infection and HIV-1 in an intermediate hepatitis B virus endemic region. J Int Assoc Provid AIDS Care. 2014 Jan-Feb; 13(1):85-90. PMID: 23722085; PMCID: PMC4114572.
      111. Morris SR, Smith D, Little SJ, Gianella S. Reply to Mounzer and DiNubile. J Infect Dis. 2013 Aug 15; 208(4):711-2. PMID: 23667136; PMCID: PMC3719903.
      112. Wagner GA, Pacold ME, Vigil E, Caballero G, Morris SR, Kosakovsky Pond SL, Little SJ, Richman DD, Gianella S, Smith D. Using ultradeep pyrosequencing to study HIV-1 coreceptor usage in primary and dual infection. J Infect Dis. 2013 Jul 15; 208(2):271-4. PMID: 23599311; PMCID: PMC3685231.
      113. Gianella S, Smith D, Vargas MV, Little SJ, Richman DD, Daar ES, Dube MP, Zhang F, Ginocchio CC, Haubrich RH, Morris SR. Shedding of HIV and human herpesviruses in the semen of effectively treated HIV-1-infected men who have sex with men. Clin Infect Dis. 2013 Aug; 57(3):441-7. PMID: 23595831; PMCID: PMC3703105.
      114. Desplats P, Dumaop W, Smith D, Adame A, Everall I, Letendre S, Ellis R, Cherner M, Grant I, Masliah E. Molecular and pathologic insights from latent HIV-1 infection in the human brain. Neurology. 2013 Apr 09; 80(15):1415-23. PMID: 23486877; PMCID: PMC3662272.
      115. Kim H, Ku NS, Kim SB, Jeong SJ, Han SH, Kim JM, Smith D, Choi JY. Simulation of pooled nucleic acid testing to identify antiretroviral treatment failure during HIV infection in Seoul, South Korea. J Acquir Immune Defic Syndr. 2013 Mar 01; 62(3):e104-5. PMID: 23924640; PMCID: PMC3873092.
      116. Morgan EE, Woods SP, Letendre SL, Franklin DR, Bloss C, Goate A, Heaton RK, Collier AC, Marra CM, Gelman BB, McArthur JC, Morgello S, Simpson DM, McCutchan JA, Ellis RJ, Abramson I, Gamst A, Fennema-Notestine C, Smith D, Grant I, Vaida F, Clifford DB. Apolipoprotein E4 genotype does not increase risk of HIV-associated neurocognitive disorders. J Neurovirol. 2013 Apr; 19(2):150-6. PMID: 23408335; PMCID: PMC3668779.
      117. Yuan L, Qiao L, Wei F, Yin J, Liu L, Ji Y, Smith D, Li N, Chen D. Cytokines in CSF correlate with HIV-associated neurocognitive disorders in the post-HAART era in China. J Neurovirol. 2013 Apr; 19(2):144-9. PMID: 23389619; PMCID: PMC4363104.
      118. Le T, Wright EJ, Smith D, He W, Catano G, Okulicz JF, Young JA, Clark RA, Richman DD, Little SJ, Ahuja SK. Enhanced CD4+ T-cell recovery with earlier HIV-1 antiretroviral therapy. N Engl J Med. 2013 Jan 17; 368(3):218-30. PMID: 23323898; PMCID: PMC3657555.
      119. Wertheim JO, Scheffler K, Choi JY, Smith D, Kosakovsky Pond SL. Phylogenetic relatedness of HIV-1 donor and recipient populations. J Infect Dis. 2013 Apr; 207(7):1181-2. PMID: 23315327; PMCID: PMC3583277.
      120. Gianella S, Morris SR, Anderson C, Spina CA, Vargas MV, Young JA, Richman DD, Little SJ, Smith D. Herpes viruses and HIV-1 drug resistance mutations influence the virologic and immunologic milieu of the male genital tract. AIDS. 2013 Jan 02; 27(1):39-47. PMID: 22739399; PMCID: PMC3769229.
      121. Gianella S, Anderson CM, Vargas MV, Richman DD, Little SJ, Morris SR, Smith D. Cytomegalovirus DNA in semen and blood is associated with higher levels of proviral HIV DNA. J Infect Dis. 2013 Mar 15; 207(6):898-902. PMID: 23275608; PMCID: PMC3571441.
      122. Fierer DS, Dieterich DT, Fiel MI, Branch AD, Marks KM, Fusco DN, Hsu R, Smith D, Fierer J. Rapid progression to decompensated cirrhosis, liver transplant, and death in HIV-infected men after primary hepatitis C virus infection. Clin Infect Dis. 2013 Apr; 56(7):1038-43. PMID: 23264364; PMCID: PMC3588118.
      123. Weber E, Morgan EE, Iudicello JE, Blackstone K, Grant I, Ellis RJ, Letendre SL, Little S, Morris S, Smith D, Moore DJ, Woods SP. Substance use is a risk factor for neurocognitive deficits and neuropsychiatric distress in acute and early HIV infection. J Neurovirol. 2013 Feb; 19(1):65-74. PMID: 23250704; PMCID: PMC3568179.
      124. Saravanan S, Madhavan V, Balakrishnan P, Smith D, Solomon SS, Sivamalar S, Poongulali S, Kumarasamy N, Schooley RT, Solomon S, Kantor R. Darunavir is a good third-line antiretroviral agent for HIV type 1-infected patients failing second-line protease inhibitor-based regimens in South India. AIDS Res Hum Retroviruses. 2013 Mar; 29(3):630-2. PMID: 23045961; PMCID: PMC3581023.
      125. Gianella S, Morris SR, Vargas MV, Young JA, Callahan B, Richman DD, Little SJ, Smith D. Role of seminal shedding of herpesviruses in HIV Type 1 Transmission. J Infect Dis. 2013 Jan 15; 207(2):257-61. PMID: 23148284; PMCID: PMC3532824.
      126. Orlov M, Vaida F, Finney OC, Smith D, Talley AK, Wang R, Kappe SH, Deng Q, Schooley RT, Duffy PE. P. falciparum enhances HIV replication in an experimental malaria challenge system. PLoS One. 2012; 7(6):e39000. PMID: 22745697; PMCID: PMC3383717.
      127. Smith D. Active duty military personnel presenting for care at a Gay Men's Health Clinic. J Homosex. 2008; 54(3):277-9. PMID: 18825864.
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      128. Smith D, Wong JK, Hightower GK, Ignacio CC, Koelsch KK, Petropoulos CJ, Richman DD, Little SJ. HIV drug resistance acquired through superinfection. AIDS. 2005 Aug 12; 19(12):1251-6. PMID: 16052079.
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      129. Smith D, Metzgar D, Wills C, Fierer J. Fatal Saccharomyces cerevisiae aortic graft infection. J Clin Microbiol. 2002 Jul; 40(7):2691-2. PMID: 12089311; PMCID: PMC120603.
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