Recent Publications

Vaccine and Infectious Disease Division

Recent Publications

Print outs of scientific publications



Abidi MZ, Hari P, Chen M, Kim S, Battiwala M, Dahi PB, Diaz MA, Gale RP, Ganguly S, Gergis U, Green J, Hildebrandt G, Hill JA, Komanduri K, Lazarus H, Marks D, Nishihori T, Olsson R, Seo S, Ustun C, Yared J, Yin D, Wingard J, Wirk BM, Auletta J, Lindemans C, Riches M. Virus detection in the cerebrospinal fluid of hematopoietic stem cell transplant recipients is associated with poor patient outcomes: a CIBMTR contemporary longitudinal study. Bone Marrow Transplant. 2019 Jan 29.

Adamson B, El-Sadr W, Dimitrov D, Gamble T, Beauchamp G, Carlson JJ, Garrison L, Jr., Donnell D. The Cost-Effectiveness of Financial Incentives for Viral Suppression: HPTN 065 Study. Value Health. 2019 Feb;22(2):194-202.

Adamson B, Lipira L, Katz AB. The Impact of ACA and Medicaid Expansion on Progress Toward UNAIDS 90-90-90 Goals. Curr HIV/AIDS Rep. 2019 Feb 14.

Barber DL, Sakai S, Kudchadkar RR, Fling SP, Day TA, Vergara JA, Ashkin D, Cheng JH, Lundgren LM, Raabe VN, Kraft CS, Nieva JJ, Cheever MA, Nghiem PT, Sharon E. Tuberculosis following PD-1 blockade for cancer immunotherapy. Sci Transl Med. 2019 Jan 16;11(475).

Chemaly RF, Hill JA, Voigt S, Peggs KS. In vitro comparison of currently available and investigational antiviral agents against pathogenic human double-stranded DNA viruses: A systematic literature review. Antiviral Res. 2019 Mar;163:50-58.

Cheng Y, Zhu YO, Becht E, Aw P, Chen J, Poidinger M, de Sessions PF, Hibberd ML, Bertoletti A, Lim SG, Newell EW. Multifactorial heterogeneity of virus-specific T cells and association with the progression of human chronic hepatitis B infection. Sci Immunol. 2019 Feb 8;4(32).

Cohen MS, Donnell D. Novel approaches for development of HIV pre-exposure prophylaxis (PrEP) agents. J Infect Dis. 2019 Jan 31.

Ddungu H, Krantz EM, Kajja I, Naluzze S, Nabbanja H, Nalubwama F, Phipps W, Orem J, Kiwanuka N, Wald A. How low can you go: What is the safe threshold for platelet transfusions in patients with hematologic malignancy in sub-Saharan Africa. PLoS One. 2019 Feb 6;14(2):e0211648.

Diallo A, Diop OM, Diop D, Niang MN, Sugimoto JD, Ortiz JR, Faye EHA, Diarra B, Goudiaby D, Lewis KDC, Emery SL, Zangeneh SZ, Lafond KE, Sokhna C, Halloran ME, Widdowson M-A, Neuzil KM, Victor JC. Effectiveness of seasonal influenza vaccination of children in Senegal during a year of vaccine mismatch: a cluster-randomized trial. Clin Infect Dis. 2019 Jan 28.

Hansen SG, Womack J, Scholz I, Renner A, Edgel KA, Xu G, Ford JC, Grey M, St Laurent B, Turner JM, Planer S, Legasse AW, Richie TL, Aguiar JC, Axthelm MK, Villasante ED, Weiss W, Edlefsen PT, Picker LJ, Fruh K. Cytomegalovirus vectors expressing Plasmodium knowlesi antigens induce immune responses that delay parasitemia upon sporozoite challenge. PLoS One. 2019 Jan 23;14(1):e0210252.

Kerr KF, Brown MD, Marsh TL, Janes H. Assessing the Clinical Impact of Risk Models for Opting Out of Treatment. Med Decis Making. 2019 Feb;39(2):86-90.

Lokken EM, Manguro GO, Abdallah A, Ngacha C, Shafi J, Kiarie J, Jaoko W, Srinivasan S, Fiedler TL, Munch MM, Fredricks DN, McClelland RS, Balkus JE. Association between vaginal washing and detection of Lactobacillus by culture and quantitative PCR in HIV-seronegative Kenyan women: a cross-sectional analysis. Sex Transm Infect. 2019 Jan 29.

Long J, Montano M, Cabello R, Sanchez H, Lama JR, Duerr A. Comparing sexual risk behavior in a high-risk group of men who have sex with men and transgender women in Lima, Peru. J Acquir Immune Defic Syndr. 2019 Jan 9.

Low DH, Phipps W, Orem J, Casper C, Bender Ignacio RA. Engagement in HIV Care and Access to Cancer Treatment Among Patients With HIV-Associated Malignancies in Uganda. J Glob Oncol. 2019 Feb;5:1-8.

Marrazzo JM, Rabe L, Kelly C, Richardson B, Deal C, Schwartz JL, Chirenje ZM, Piper J, Morrow RA, Hendrix CW, Marzinke MA, Hillier SL. Tenofovir gel for prevention of herpes simplex virus type-2 acquisition: findings from the VOICE Trial. J Infect Dis. 2019 Feb 11.

McGuffin SA, Bharadwaj R, Gonzalez-Cuyar LF, Schiffer JT, Stacey AW, Walter RB, Duke ER. In the Eye of the Beholder: A Conjunctival Lesion in a Woman With Acute Myelogenous Leukemia. Clin Infect Dis. 2019 Jan 18;68(3):525-529.

McKinnon LR, Achilles S, Bradshaw CS, Burgener A, Crucitti T, Fredricks DN, Jaspan HB, Kaul R, Kaushic C, Klatt N, Kwon DS, Marrazzo JM, Masson L, McClelland S, Ravel J, van de Wijgert JHHM, Vodstrcil LA, Tachedjian G. The evolving facets of bacterial vaginosis: implications for HIV transmission. AIDS Res Hum Retroviruses. 2019 Mar;35(3):219-228

Nghiem P, Bhatia S, Lipson EJ, Sharfman WH, Kudchadkar RR, Brohl AS, Friedlander PA, Daud A, Kluger HM, Reddy SA, Boulmay BC, Riker AI, Burgess MA, Hanks BA, Olencki T, Margolin K, Lundgren LM, Soni A, Ramchurren N, Church C, Park SY, Shinohara MM, Salim B, Taube JM, Bird SR, Ibrahim N, Fling SP, Homet Moreno B, Sharon E, Cheever MA, Topalian SL. Durable Tumor Regression and Overall Survival in Patients With Advanced Merkel Cell Carcinoma Receiving Pembrolizumab as First-Line Therapy. J Clin Oncol. 2019 Feb 6:JCO1801896.

Qiu Z, Wan ATK, Zhou Y, Gilbert PB. Smoothed Rank Regression for the Accelerated Failure Time Competing Risks Model with Missing Cause of Failure. Stat Sin. 2019 Jan;29(1):23-46.

Rinehart R, Rao D, Amico RK, Ruiz E, Brandes P, Correa C, Pasalar S, Lama JR, Duerr A, Molina Y. Correction to: Experienced HIV-Related Stigma and Psychological Distress in Peruvian Sexual and Gender Minorities: A Longitudinal Study to Explore Mediating Roles of Internalized HIV-Related Stigma and Coping Styles. AIDS Behav. 2019 Mar;23(3):675.

Sabo MC, Balkus JE, Richardson BA, Srinivasan S, Kimani J, Anzala O, Schwebke J, Feidler TL, Fredricks DN, McClelland RS. Association between vaginal washing and vaginal bacterial concentrations. PLoS One. 2019 Jan 24;14(1):e0210825.

Schwartz LM, Zaman K, Yunus M, Basunia A-UH, Faruque ASG, Ahmed T, Rahman M, Sugimoto JD, Halloran ME, Rowhani-Rahbar A, Neuzil KM, Victor JC. Impact of rotavirus vaccine introduction in children less than 2 years of age presenting for medical care with diarrhea in rural Matlab, Bangladesh. Clin Infect Dis. 2019 Feb 12.

Shean RC, Makhsous N, Stoddard GD, Lin MJ, Greninger AL. VAPiD: a lightweight cross-platform viral annotation pipeline and identification tool to facilitate virus genome submissions to NCBI GenBank. BMC Bioinformatics. 2019 Jan 23;20(1):48.

Smith SD, Reddy P, Sokolova A, Chow VA, Lynch RC, Shadman Ma MA, Till BG, Shustov AR, Warren Eh EH, Ujjani CS, Menon MP, Tseng YD, Gopal AK. Eligibility for Car T-cell Therapy: An Analysis of Selection Criteria and Survival Outcomes in Chemorefractory DLBCL. Am J Hematol. 2019 Apr;94(4):E117-E116.

Stohs E, Chow VA, Liu C, Bourassa L, Miles-Jay A, Knight J, Sweet A, Storer BE, Mielcarek M, Pergam SA. Limited Utility of Outpatient Surveillance Blood Cultures in Hematopoietic Cell Transplant Recipients on High-Dose Steroids for Treatment of Acute Graft-versus-Host-Disease. Biol Blood Marrow Transplant. 2019 Feb 1.

Tsuyuki K, Shoptaw SJ, Ransome Y, Chau G, Rodriguez-Diaz CE, Friedman RK, Srithanaviboonchai K, Li S, Mimiaga MJ, Mayer KH, Safren SA. The Longitudinal Effects of Non-injection Substance Use on Sustained HIV Viral Load Undetectability Among MSM and Heterosexual Men in Brazil and Thailand: The Role of ART Adherence and Depressive Symptoms (HPTN 063). AIDS Behav. 2019 Mar;23(3):649-660.

Wright T, Coruh B, Fredricks D, Kim N. Immune reconstitution inflammatory syndrome associated with disseminated histoplasmosis and TNF-alpha inhibition. Med Mycol Case Rep. 2018 Dec 22;23:62-64.


Azenkot T, Zaniello B, Green ML, Selke S, Huang M-L, Magaret A, Wald A, Johnston C. Cytomegalovirus shedding from breastmilk and mucosal sites in healthy post-partum women: a pilot study. J Med Virol. 2018 Dec 22.

Bajema KL, Bassett IV, Coleman SM, Ross D, Freedberg KA, Wald A, Drain PK. Subclinical tuberculosis among adults with HIV: clinical features and outcomes in a South African cohort. BMC Infect Dis. 2019 Jan 5;19(1):14.

Becht E, McInnes L, Healy J, Dutertre C-A, Kwok IWH, Ng LG, Ginhoux F, Newell EW. Dimensionality reduction for visualizing single-cell data using UMAP. Nat Biotechnol. 2018 Dec 3.

Bonsignori M, Scott E, Wiehe K, Easterhoff D, Alam SM, Hwang K-K, Cooper M, Xia S-M, Zhang R, Montefiori DC, Henderson R, Nie X, Kelsoe G, Moody MA, Chen X, Joyce MG, Kwong PD, Connors M, Mascola JR, McGuire AT, Stamatatos L, Medina-Ramirez M, Sanders RW, Saunders KO, Kepler TB, Haynes BF. Inference of the HIV-1 VRC01 Antibody Lineage Unmutated Common Ancestor Reveals Alternative Pathways to Overcome a Key Glycan Barrier. Immunity. 2018 Dec 18;49(6):1162-1174.e8.

Chan AK, Ammanuel SG, Chan AY, Oh T, Skrehot HC, Edwards CS, Kondapavulur S, Miller CA, Nichols AD, Liu C, Dhall SS, Clark AJ, Chou D, Ames CP, Mummaneni PV. Chlorhexidine Showers are Associated With a Reduction in Surgical Site Infection Following Spine Surgery: An Analysis of 4266 Consecutive Surgeries. Neurosurgery. 2018 Dec 22.

Fogel JM, Zhang Y, Palumbo PJ, Guo X, Clarke W, Breaud A, Richardson P, Piwowar-Manning E, Hamilton EL, Ha TV, Dumchev K, Djoerban Z, Hoffman I, Hanscom B, Miller WC, Eshleman SH. Use of Antiretroviral Drug Testing to Assess the Accuracy of Self-reported Data from HIV-Infected People Who Inject Drugs. AIDS Behav. 2019 Jan 1.

Fong Y, Huang Y, Lemos MP, McElrath MJ. Response to Guo et al.'s Letter to the Editor. Biostatistics. 2018 Dec 26.

Hightow-Weidman LB, Magnus M, Beauchamp G, Hurt CB, Shoptaw S, Emel L, Piwowar-Manning E, Mayer KH, Nelson LE, Wilton L, Watkins P, Whitfield D, Fields SD, Wheeler D. Incidence and Correlates of STIs among Black Men who have Sex with Men Participating in the HPTN 073 PrEP Study. Clin Infect Dis. 2019 Jan 7.

Juraska M, Huang Y, Gilbert PB. Inference on treatment effect modification by biomarker response in a three-phase sampling design. Biostatistics. 2018 Dec 26.

Kapadia SN, Wu C, Mayer KH, Wilkin TJ, Amico KR, Landovitz RJ, Andrade A, Chen YQ, Chege W, McCauley M, Gulick RM, Schackman BR. No change in health-related quality of life for at-risk U.S. women and men starting HIV pre-exposure prophylaxis (PrEP): Findings from HPTN 069/ACTG A5305. PLoS One. 2018 Dec 26;13(12):e0206577.

Kisalu NK, Idris AH, Weidle C, Flores-Garcia Y, Flynn BJ, Sack BK, Murphy S, Schon A, Freire E, Francica JR, Miller AB, Gregory J, March S, Liao H-X, Haynes BF, Wiehe K, Trama AM, Saunders KO, Gladden MA, Monroe A, Bonsignori M, Kanekiyo M, Wheatley AK, McDermott AB, Farney SK, Chuang G-Y, Zhang B, Kc N, Chakravarty S, Kwong PD, Sinnis P, Bhatia SN, Kappe SHI, Sim BKL, Hoffman SL, Zavala F, Pancera M, Seder RA. Author Correction: A human monoclonal antibody prevents malaria infection by targeting a new site of vulnerability on the parasite. Nat Med. 2019 Jan;25(1):188-189.

Kraft SA, Duenas DM, Kublin JG, Shipman KJ, Murphy SC, Shah SK. Exploring Ethical Concerns About Human Challenge Studies: A Qualitative Study of Controlled Human Malaria Infection Study Participants' Motivations and Attitudes. J Empir Res Hum Res Ethics. 2019 Feb;14(1):49-60.

Lemaitre RN, McKnight B, Sotoodehnia N, Fretts AM, Qureshi WT, Song X, King IB, Sitlani CM, Siscovick DS, Psaty BM, Mozaffarian D. Circulating Very Long-Chain Saturated Fatty Acids and Heart Failure: The Cardiovascular Health Study. J Am Heart Assoc. 2018 Nov 6;7(21):e010019.

Liu C, Strnad L, Beekmann SE, Polgreen PM, Chambers HF. Clinical Practice Variation Among Adult Infectious Diseases Physicians in the Management of Staphylococcus aureus Bacteremia. Clin Infect Dis. 2019 Jan 2.

McGowan I, Wilkin T, Landovitz RJ, Wu C, Chen Y, Marzinke MA, Hendrix CW, Richardson P, Eshleman SH, Andrade A, Chege W, Anderson PL, McCauley M, Farley J, Mayer KH, Anton P, Brand RM, Cranston RD, Gulick R. The pharmacokinetics, pharmacodynamics, and mucosal responses to maraviroc-containing PrEP Regimens in Men who have Sex with Men. AIDS. 2018 Dec 13.

McGowan I, Wilkin T, Landovitz RJ, Wu C, Chen Y, Marzinke MA, Hendrix CW, Richardson P, Eshleman SH, Andrade A, Chege W, Anderson PL, McCauley M, Farley J, Mayer KH, Anton P, Brand RM, Cranston RD, Gulick R. The pharmacokinetics, pharmacodynamics, and mucosal responses to maraviroc-containing pre-exposure prophylaxis regimens in MSM. AIDS. 2019 Feb 1;33(2):237-246.

Molina Y, Ulrich A, Greer AC, Primbas A, Wandell G, Sanchez H, Bain C, Konda KA, Clark JL, De la Grecca R, Villaran MV, Pasalar S, Lama JR, Duerr AC. Impact of pre-diagnosis awareness of HIV-related stigma and dispositional coping on linkage to HIV care among newly diagnosed HIV+ Peruvian patients. AIDS Care. 2019 Jan 7:1-9.

Pasin C, Halloran ME, Gilbert PB, Langevin E, Ochiai RL, Pitisuttithum P, Capeding MR, Carrasquilla G, Frago C, Cortes M, Chambonneau L, Moodie Z. Periods of high dengue transmission defined by rainfall do not impact efficacy of dengue vaccine in regions of endemic disease. PLoS One. 2018 Dec 13;13(12):e0207878.

Peebles K, Velloza J, Balkus JE, Scott McClelland R, Barnabas RV. High Global Burden and Costs of Bacterial Vaginosis: A Systematic Review and Meta-Analysis. Sex Transm Dis. 2019 Jan 7.

Price SA, Podczervinski S, MacLeod K, Helbert L, Pergam SA. Understanding influenza vaccination rates and reasons for refusal in caregivers and household contacts of cancer patients. Am J Infect Control. 2018 Dec 3.

Rose R, Hall M, Redd AD, Lamers S, Barbier AE, Porcella SF, Hudelson SE, Piwowar-Manning E, McCauley M, Gamble T, Wilson EA, Kumwenda J, Hosseinipour MC, Hakim JG, Kumarasamy N, Chariyalertsak S, Pilotto JH, Grinsztejn B, Mills LA, Makhema J, Santos BR, Chen YQ, Quinn TC, Fraser C, Cohen MS, Eshleman SH, Laeyendecker O. Phylogenetic methods inconsistently predict direction of HIV transmission among heterosexual pairs in the HPTN052 cohort. J Infect Dis. 2018 Dec 24.

Rose TM, Bruce AG, Barcy S, Fitzgibbon M, Matsumoto LR, Ikoma M, Casper C, Orem J, Phipps W. Quantitative RNAseq analysis of Ugandan KS tumors reveals KSHV gene expression dominated by transcription from the LTd downstream latency promoter. PLoS Pathog. 2018 Dec 17;14(12):e1007441.

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 Clin Trials. 2018 Oct;19(5):202-208.

Spearman P, Tomaras GD, Montefiori DC, Huang Y, Elizaga ML, Ferrari G, Alam SM, Isaacs A, Ahmed H, Hural J, McElrath MJ, Ouedraogo L, Pensiero M, Butler C, Kalams SA, Overton ET, Barnett SW. Rapid Boosting of HIV-1 Neutralizing Antibody Responses in Humans Following a Prolonged Immunologic Rest. J Infect Dis. 2019 Jan 7.

Staal B, Liu Y, Barnett D, Hsueh P, He Z, Gao C-F, Partyka K, Hurd MW, Singhi AD, Drake RR, Huang Y, Maitra A, Brand RE, Haab BB. The sTRA Plasma Biomarker: Blinded Validation of Improved Accuracy over CA19-9 in Pancreatic Cancer Diagnosis. Clin Cancer Res. 2019 Jan 7.

Viscoli CM, Kent DM, Conwit R, Dearborn JL, Furie KL, Gorman M, Guarino PD, Inzucchi SE, Stuart A, Young LH, Kernan WN. Scoring System to Optimize Pioglitazone Therapy After Stroke Based on Fracture Risk. Stroke. 2018 Dec 10:STROKEAHA118022745.

Waghmare A, Xie H, Kuypers J, Sorror ML, Jerome KR, Englund JA, Boeckh M, Leisenring WM. Human rhinovirus infections in hematopoietic cell transplant recipients: risk score for progression to lower respiratory tract infection. Biol Blood Marrow Transplant. 2018 Dec 8.

Wang L, Luedtke AR, Huang Y. Assessing the incremental value of new biomarkers based on OR rules. Biostatistics. 2018 Dec 26.

Westling T, Juraska M, Seaton KE, Tomaras GD, Gilbert PB, Janes H. Methods for comparing durability of immune responses between vaccine regimens in early-phase trials. Stat Methods Med Res. 2019 Jan 9:962280218820881.

Winston McPherson G, Long T, Salipante SJ, Rongitsch JA, Hoffman NG, Stephens K, Penewit K, Greene DN. The Vaginal Microbiome of Transgender Men. Clin Chem. 2019 Jan;65(1):199-207.

Yang J, Jing L, James EA, Gebe JA, Koelle DM, Kwok WW. A Novel Approach of Identifying Immunodominant Self and Viral Antigen Cross-Reactive T Cells and Defining the Epitopes They Recognize. Front Immunol. 2018 Dec 3;9:2811.

Zhang X, Zhang Y, Zhu X, Purmann C, Haney MS, Ward T, Khechaduri A, Yao J, Weissman SM, Urban AE. Local and global chromatin interactions are altered by large genomic deletions associated with human brain development. Nat Commun. 2018 Dec 17;9(1):5356.