Research Summary

My cancer-related research centers around Kaposi sarcoma (KS) and its etiologic agent, Kaposi’s sarcoma-associated herpesvirus (KSHV), with work both in the US and in Africa.

My qualifications for research include both theoretical background and practical experience. I am Director of the UCSF Training in Clinical Research (TICR) Program, which provides graduate-level didactic training in clinical, epidemiologic, and translational research methods to graduate students, post-doctoral fellows, and junior faculty members at UCSF. The TICR Program, which is supported by the UCSF NIH-sponsored Clinical and Translational Science Award (CTSA), includes 33 different courses spanning “laboratory to human subjects” translational research, traditional clinical and epidemiologic research, and “evidence to practice” implementation science research. In direct teaching, I am the course director of “Epidemiologic Methods,” the program’s foundational course in research methods, and the “Master’s Program Seminar Series.” On a practical level, I have extensive experience in both observational and experimental research in both the US and Africa. In the US, I am Co-Director of the Population and Clinical Sciences Core of the UCSF NIH-sponsored Center for AIDS Research (CFAR), which manages the 1800-subject UCSF SCOPE cohort, a vehicle that has supported collaborative research leading to over 200 publications since 2000. In Africa, I am the Principal Investigator (PI) for U54 CA190153 (a project which focuses on the early detection and prevention of KS in Uganda); PI for the UCSF component of the East Africa International Epidemiologic Databases to Evaluate AIDS (IeDEA) Consortium (U01 AI069911), in which I direct the working group on cancer; PI for the recently completed R01 CA119903 (a randomized trial for the therapy of KS in Africa); PI for the recently completed D43 CA153717 (a training grant related to KS in Uganda); and Director of the Data Coordinating Center for the 750-subject Mbarara-based Uganda AIDS Rural Treatment Outcomes (UARTO) Cohort. UARTO, which has spun off over 50 publications from collaborative projects since 2006, is a microscopic complement of IeDEA. In all of this work, I have had broad experience with study design, instrument development, study recruitment/ retention, data collection, quality enhancement, data reporting, biostatistical analysis, manuscript preparation, and financial management.

Research Funding

  • September 1, 2001 - August 31, 2031 - Center for AIDS Prevention Studies (CAPS) , Co-Investigator . Sponsor: NIH, Sponsor Award ID: P30MH062246
  • August 10, 2019 - March 31, 2030 - Training in Clinical and Epidemiological Research for Liberia (TRACER) , Principal Investigator . Sponsor: NIH, Sponsor Award ID: D43TW011281
  • September 30, 1988 - June 30, 2027 - UCSF-Bay Area Center for AIDS Research , Co-Investigator . Sponsor: NIH, Sponsor Award ID: P30AI027763
  • June 10, 2022 - May 31, 2027 - Rapid Sample-to-Answer Diagnosis of Kaposi's Sarcoma Across Sub-Saharan Africa using KS-COMPLETE , Co-Principal Investigator . Sponsor: NIH, Sponsor Award ID: U01CA269199
  • July 13, 2020 - June 30, 2026 - United States-East Africa HIV-Associated Malignancy Research Center (USEAHAMRC) for Career Development and the Prevention, Early Detection and Efficient Linkage to Care for Virus-related Cancers , Principal Investigator . Sponsor: NIH, Sponsor Award ID: U54CA254571
  • August 10, 2019 - April 30, 2024 - Training in Clinical and Epidemiological Research for Liberia (TRACER) , Principal Investigator . Sponsor: NIH, Sponsor Award ID: U2RTW011281
  • August 17, 2016 - July 31, 2022 - Early Stage Diagnosis of Kaposi's Sarcoma in Limited Resource Settings using KS-Detect , Co-Principal Investigator . Sponsor: NIH, Sponsor Award ID: UH3CA202723
  • September 17, 2014 - August 31, 2020 - Uganda-UCSF Consortium on Prevention and Early Detection of HIV-Associated Cancer , Principal Investigator . Sponsor: NIH, Sponsor Award ID: U54CA190153
  • August 17, 2016 - July 31, 2018 - Early Stage Diagnosis of Kaposi's Sarcoma in Limited Resource Settings using KS-Detect , Co-Principal Investigator . Sponsor: NIH, Sponsor Award ID: UH2CA202723
  • September 9, 2010 - August 31, 2015 - Uganda-UCSF Research Training in HIV-Associated Malignancies , Principal Investigator . Sponsor: NIH, Sponsor Award ID: D43CA153717
  • September 30, 2005 - July 31, 2012 - Antiretroviral Therapy of AIDS-Related Kaposi's Sarcoma in Africa , Principal Investigator . Sponsor: NIH, Sponsor Award ID: R01CA119903

Education

Johns Hopkins University; Baltimore, Maryland, BA, 1979-83, Biology
University of Pennsylvania; Philadelphia, MD, 1983-88, Medicine
UC, San Francisco, 1988-89, Medicine - Internship
UC, San Francisco, 1989-91, Medicine - Residency 
UC, San Francisco, 1991-92, Medicine - Chief Residency
UC, Berkeley, MPH, 1992-93, Epidemiology
UC, San Francisco, 1993-97, Infectious Diseases - Fellowship
UC, San Francisco, 1993-97, AIDS Prevention - Fellowship

Honors & Awards

  • 1982
    Phi Beta Kappa
  • 1988
    Alpha Omega Alpha
  • 1988
    Merck Manual Award, University of Pennsylvania School of Medicine
  • 1989
    Diplomate, National Board of Medical Examiners
  • 1991
    Diplomate, American Board of Internal Medicine
  • 1996
    Diplomate, American Board of Internal Medicine, Subspecialty in Infectious Diseases
  • 1998
    New Investigator Award, UCSF Center for AIDS Research (CFAR)
  • 2009
    Stephen B. Hulley Award for Excellence in Instruction in Methods of Clinical Research at UCSF

Selected Publications

  1. Sales C, Maurer T, Ahuja S, Grant M, Chemtai L, Lagat C, Nalubega JF, Nansereko M, Achieng M, Rotich E, Odhiambo P, Musinguzi P, Kiprono S, Felker D, Collier S, Martin J, Semeere A. What Will it Take to Scale-Up Teledermatology? Providers' Perspectives in Kenya and Uganda. Clin Exp Dermatol. 2026 Sep 17. View on PubMed
  2. Navarro-Soler R, Heise MJ, Dalhuisen T, Grebe H, Ryder D, Rodriguez AE, Buitrago M, Hoh R, Sette A, Hunt PW, Shimoda M, Henrich TJ, Lynch K, Andino-Pavlosky R, Martin JN, Deeks SG, Rutishauser RL, Spinelli MA, Peluso MJ. CD4 Count and CD4/CD8 Ratio Impact Antibody Responses to COVID-19 mRNA Booster Vaccination in People with HIV on Suppressive ART. J Acquir Immune Defic Syndr. 2026 Sep 09. View on PubMed
  3. Ahmed D, Bilker WB, Han X, Tyndale RF, Merlin J, Kimmel SE, Martin J, Plankey M, Christopoulos K, Hojat LS, Bamford L, Napravnik S, Schnoll R, Ashare R, Gross R. Rate of nicotine metabolism on risk of myocardial infarction among people with HIV who smoke cigarettes. PLoS One. 2026; 21(8):e0356296. View on PubMed
  4. Ma T, Ryu H, Yin K, Dalhuisen T, Robbins D, Bailey TT, Thomas SA, Fehrman EA, Kelly JD, Martin JN, Lynch KL, Lee SA, Deeks SG, Henrich TJ, Peluso MJ, Newell EW, Roan NR. Persistent cytolytic CD8+ T cells recognize SARS-CoV-2 and herpesvirus epitopes in long COVID. Cell Rep Med. 2026 Jul 29; 102946. View on PubMed
  5. Wang Y, Gornalusse GG, Bhatt U, Siegel DA, Barbehenn A, Hoh R, Martin J, Hecht F, Pilcher C, Semenova L, Murdoch DM, Margolis DM, Levy CN, Jerome KR, Rudin CD, Hladik F, Deeks SG, Lee SA, Browne EP. Distinct Transcriptomic Profiles in ART-Treated People with HIV Are Associated with NF-κB-regulated Gene Expression and Inflammatory Cytokine Signatures. J Acquir Immune Defic Syndr. 2026 Jul 27. View on PubMed
  6. Veeramachaneni S, Park E, Martin J, Ringor M, Brown G, Weisman A, Batra K. The Efficacy of Hypnotherapy in Reducing Burnout and Related Psychopathologies: Protocol for a Systematic Review and Meta-Analysis. JMIR Res Protoc. 2026 07 17; 15:e69733. View on PubMed
  7. Semeere AS, Slone J, Amorim G, Musick B, Crabtree-Ramírez B, Diero L, Otero L, Riley HV, Ngeresa A, Nsumba M, Ssemuwemba H, Enyel P, Nakigozi G, Rubega G, Lwali J, Salgado G, Calvet G, Rodriguez MF, Grana A, Juarez K, Tao R, Duda S, Yiannoutsos C, Lumley T, Martin J, Shaw PA, Shepherd BE. Trends in the Incidence of Kaposi Sarcoma among Adults Attending HIV Care Facilities in East Africa and Latin America in the Treat-All Era. medRxiv. 2026 Jul 09. View on PubMed
  8. McAtee CL, Peckham-Gregory E, Sok P, Richard M, Olivares L, Marquez-Do D, Kisitu G, Martin J, El-Mallawany NK, Allen CE, Lubega J, Scheurer ME. Genome-wide association study identifies and validates genetic variation in the RIG-I/MAVS signaling pathway associated with HIV-related Kaposi sarcoma in children and adults. Front Oncol. 2026; 16:1796311. View on PubMed
  9. Pesqueira Sanchez MA, de Necochea Campion R, Dalhuisen T, Fehrman EA, Chhabra PS, Kelly JD, Martin JN, Deeks SG, Henrich TJ, Peluso MJ, LaRosa SP. Increased Mannosylation of Extracellular Vesicles in Long COVID Plasma as a Binding Target for Galanthus nivalis Agglutinin (GNA) Affinity Resin. Int J Mol Sci. 2026 Jun 25; 27(13). View on PubMed
  10. Arul GS, Singh A, Jones A, Martin J, Kanthimathinathan HK. Clinicians' attitudes to the West Midlands damage control surgery pathway for severe necrotising enterocolitis. Arch Dis Child Fetal Neonatal Ed. 2026 Jun 17. View on PubMed
  11. Ahuja S, Maurer T, Sales C, Chemtai L, Lagat C, Achieng M, Rotich E, Odhiamo P, Musinguzi P, Kiprono S, Felker D, Collier S, Martin J, Semeere A. Implementation of teledermatology to identify and expedite care for Kaposi sarcoma. AIDS. 2026 Jul 01; 40(7):1043-1045. View on PubMed
  12. Coates SJ, Yang F, Hill C, Xue Z, Rajaraman S, Semeere A, Ayanga R, Laker-Oketta M, Byakwaga H, Lukande R, Semakadde M, Kanyesigye M, Wenger M, LeBoit P, McCalmont T, Cesarman E, Erickson D, Maurer T, Antani S, Martin J. Artificial Intelligence-Based Diagnosis of Kaposi Sarcoma Using Digital Photographs in Dark-Skinned Patients in Uganda. JCO Glob Oncol. 2026 Mar; 12(3):e2500236. View on PubMed
  13. Shah MM, Abedi GR, Lu S, Garcia-Knight M, Pineda-Ramirez J, Goldberg SA, Grijalva CG, Keipp Talbot H, Schmitz J, Lutrick K, Ellingson KD, Stockwell MS, Sano E, Nguyen HQ, Rao S, Asturias EJ, Suthar MS, Mellis AM, Deeks SG, Martin JN, Peluso MJ, Andino R, Rolfes MA, Kirking HL, Smith-Jeffcoat SE, Midgley CM, Hagen MB, Kelly JD, Respiratory Virus Transmission Network–Sentinel Study Group, UCSF FindCOVID Study Group. SARS-CoV-2 infectious shedding and rebound among adults with and without oral antiviral use: two case-ascertained prospective household studies. Lancet Microbe. 2026 Jan; 7(1):101227. View on PubMed
  14. Garcia-Knight MA, Chen JY, Zhang A, Tassetto M, Lu S, Perez-Añorve IX, Goldberg SA, Anglin K, Viswanathan B, Deeks SG, Henrich T, Martin JN, Peluso MJ, Andino R, Kelly JD. Epstein Barr viral shedding dynamics in saliva during acute SARS-CoV-2 infection. medRxiv. 2026 Jan 08. View on PubMed
  15. Chu X, Manning JC, Boza JM, Mcgaskey M, Ayanga R, Muwando H, Wenger M, Lukande R, Maurer T, Cesarman E, Martin J, Semeere A, Erickson D. Loop-Mediated Isothermal Amplification Enables Reliable Kaposi Sarcoma Diagnosis Across Time and Sites in East Africa. J Med Virol. 2026 Jan; 98(1):e70772. View on PubMed
  16. Haw NJL, Lesko CR, Ng DK, Lam JO, Gebo K, Sterling TR, Rabkin CS, Li J, Buchacz K, Agwu A, Althoff K, North American AIDS Cohort Collaboration on Research and Design (NA-ACCORD). Incidence of AIDS-Defining Conditions Among Adults With Perinatally Acquired HIV After Transition to Adult HIV Care in the United States and Canada, 2000-2022. Clin Infect Dis. 2025 12 24; 81(5):962-969. View on PubMed
  17. Peng B, Dalhuisen T, Rogers A, Capric V, Davies HE, Deeks SG, Dupont CL, Estevez J, Freire M, Haddad NS, Jones SA, Kelly JD, Ladell K, Lee FE, Martin JN, Miners KL, Peluso MJ, Price DA, Proal AD, Putrino D, Scheuermann RH, VanElzakker MB, Zhang Y, Tan GS, Qian Y. Machine Learning Analysis of Post-Acute COVID Symptoms Identifies Distinct Clusters, Severity Groups, and Trajectories. medRxiv. 2025 Dec 22. View on PubMed
  18. Byakwaga H, Semeere A, Laker-Oketta M, Busakhala N, Freeman E, Rotich E, Wenger M, Kadama-Makanga P, Kisuya J, Semakadde M, Mwine B, Kasozi C, Mwebesa B, Maurer T, Glidden DV, Wools-Kaloustian K, Kambugu A, Martin J. Survival After Diagnosis of HIV-Associated Kaposi Sarcoma Among Adults in East Africa in the "Treat-All" Era. J Acquir Immune Defic Syndr. 2025 Dec 01; 100(4):294-304. View on PubMed
  19. Pesqueira Sanchez MA, de Necochea Campion R, Dalhuisen T, Fehrman EA, Chhabra PS, Kelly JD, Martin JN, Deeks SG, Henrich TJ, Peluso MJ, LaRosa SP. Increased mannosylation of extracellular vesicles in Long COVID plasma provides a potential therapeutic target for Galanthus nivalis agglutinin (GNA) affinity resin. bioRxiv. 2025 Nov 21. View on PubMed
  20. Thaweethai T, Donohue SE, Martin JN, Hornig M, Mosier JM, Shinnick DJ, Ashktorab H, Atieh O, Blomkalns A, Brim H, Chen Y, Cortez MM, Erdmann NB, Flaherman V, Goepfert P, Goldman JD, Hamburg NM, Han JE, Heath JR, Jacoby V, Jolley SE, Kelly JD, Kelly SW, Kim C, Krishnan JA, Letts R, Levitan EB, Modes ME, McComsey GA, Metz TD, Mullington JM, Ofotokun I, Okumura MJ, Paredes CC, Patterson TF, Peluso MJ, Reece R, Sherif ZA, Simhan HN, Simmons C, Singh U, Taylor BS, Taylor BD, Trinity JD, Troxel AB, Utz PJ, Vasey AJ, Weinberger E, Wiley Z, Wisnivesky J, Yee LM, Horwitz L, Foulkes AS, Levy BD, RECOVER-Adult Consortium. Long COVID trajectories in the prospectively followed RECOVER-Adult US cohort. Nat Commun. 2025 Nov 17; 16(1):9557. View on PubMed

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