Rafick Sékaly, PhD

Research Program

Cancer Immunology
Phone Number

404-727-3571
Email Address

rafick.sekaly@emory.edu

Biography

Rafick-Pierre Sékaly, PhD, is a professor and serves as vice-chair of translational medicine in the Department of Pathology and Laboratory Medicine at Emory University School of Medicine in Atlanta, Georgia. Dr. Sékaly is a Georgia Research Alliance Eminent Scholar. He is a member of the Cancer Immunology Research Program at Winship Cancer Institute.

Education

Dr Sékaly obtained his PhD in Biochemistry from the Université de Lausanne in Switzerland where he also completed a postdoctoral fellowship on immunogenetics and molecular biology.

Titles & Roles

Professor and Vice-Chair of Translational Medicine, Department of Pathology and Laboratory Medicine

Emory University School of Medicine

Research

For over two decades, Dr. Sékaly's group has been focused on developing a better understanding of the human immune response to vaccines and to chronic viral infections with a specific focus on HIV infection. They have implemented the use of system biology approaches to monitor the diversity of memory T cell and to identify the mechanisms underlying the diversity of memory T cell subsets. They have pioneered the application of systems biology approaches to the understanding of mechanisms of action of the licensed vaccines and adjuvants. They have also shown for the first time the diversity of the mechanism that lead to the establishment and persistence of HIV in different memory T cell subsets.

Grants

View Grants

Grant Number	Title
4R37AI141258-07	Harnessing IL-10 in cART treated SIV infected macaques to restore immunity and to eradicate HIV
5R37AI141258-08	Harnessing IL-10 in cART treated SIV infected macaques to restore immunity and to eradicate HIV
5U01AI131295-06	Resetting immune homeostasis: a non-invasive approach towards HIV eradication
5UM1AI164561-04	Reversing Immune Dysfunction for HIV-1 Eradication

Publications

Dr. Sékaly has published more than 340 peer-reviewed articles in scientific journals and holds 25 patents in adjuvants, PD-1 and vaccine vectors.

Dr. Sékaly is an inductee of the MilliPub Club, which recognizes current Emory faculty who have published one or more individual papers throughout their careers that have garnered more than 1,000 citations.

Title/Journal	Authors	Publication Date
TGF-β mediates epigenetic control of innate antiviral responses and SIV reservoir size. Research square	K Ghneim, F Ten-Caten, AC Santana, MB Latif, DAD Dinamarca, T García-Salum, PMDR Estrada, P Sohal, Z Strongin, J Harper, S Jean, C Wallace, R Balderas, JD Lifson, G Raghunathan, E Rimmer, C Pastuskova, G Wu, L Micci, LFM Sieben, PCL Gerum, J Dos Santos, MG Netea, A van der Ven, G Silvestri, DJ Hazuda, DM Gorman, BJ Howell, AA Sharma, M Paiardini, H Soudeyns, SP Ribeiro, RP Sekaly	03/19/2025
Compromised Intestinal Barrier Resilience to Disruption in People with HIV. The Journal of infectious diseases	MW Shaikh, S Singh, LB Giron, L Zhang, S Shankaran, PA Engen, M Villanueva, AA Sharma, RP Sekaly, A Landay, A Keshavarzian, M Abdel-Mohsen	03/06/2025
Treatment of non-Hodgkin lymphoma with point-of-care manufactured CAR T cells: a dual institution, phase 1 trial. EClinicalMedicine	A Ghobadi, PF Caimi, JS Reese, K Goparaju, M di Trani, J Ritchey, Z Jackson, B Tomlinson, JM Schiavone, S Kleinsorge-Block, K Zamborsky, L Eissenberg, D Schneider, KM Boughan, EC Zabor, L Metheny, M Gallogly, W Kruger, M Kadan, A Worden A S, A Sharma, BW Cooper, F Otegbeye, RP Sekaly, DN Wald, C Carlo-Stella, J DiPersio, R Orentas, B Dropulic, M de Lima	03/01/2025
Identification of a multi-omics factor predictive of long COVID in the IMPACC study. bioRxiv : the preprint server for biology	G Gabernet, J Maciuch, JP Gygi, JF Moore, A Hoch, C Syphurs, T Chu, ND Jayavelu, DB Corry, F Kheradmand, LR Baden, RP Sekaly, GA McComsey, EK Haddad, CB Cairns, N Rouphael, A Fernandez-Sesma, V Simon, JP Metcalf, NI Agudelo Higuita, CL Hough, WB Messer, MM Davis, KC Nadeau, B Pulendran, M Kraft, C Bime, EF Reed, J Schaenman, DJ Erle, CS Calfee, MA Atkinson, SC Brackenridge, E Melamed, AC Shaw, DA Hafler, A Ozonoff, SE Bosinger, W Eckalbar, HT Maecker, S Kim-Schulze, H Steen, F Krammer, K Westendorf, B Peters, S Fourati, MC Altman, O Levy, KK Smolen, RR Montgomery, J Diray-Arce, SH Kleinstein, L Guan, LIR Ehrlich	02/14/2025
Machine learning models predict long COVID outcomes based on baseline clinical and immunologic factors. medRxiv : the preprint server for health sciences	ND Jayavelu, H Samaha, ST Wimalasena, A Hoch, JP Gygi, G Gabernet, A Ozonoff, S Liu, CE Milliren, O Levy, LR Baden, E Melamed, LIR Ehrlich, GA McComsey, RP Sekaly, CB Cairns, EK Haddad, J Schaenman, AC Shaw, DA Hafler, RR Montgomery, DB Corry, F Kheradmand, MA Atkinson, SC Brakenridge, NIA Higuita, JP Metcalf, CL Hough, WB Messer, B Pulendran, KC Nadeau, MM Davis, LN Geng, AF Sesma, V Simon, F Krammer, M Kraft, C Bime, CS Calfee, DJ Erle, CR Langelier, L Guan, HT Maecker, B Peters, SH Kleinstein, EF Reed, J Diray-Arce, N Rouphael, MC Altman	02/13/2025
Human immune organoids to decode B cell response in healthy donors and patients with lymphoma. Nature materials	Z Zhong, M Quiñones-Pérez, Z Dai, VM Juarez, E Bhatia, CR Carlson, SB Shah, A Patel, Z Fang, T Hu, M Allam, SL Hicks, M Gupta, SL Gupta, E Weeks, SD Vagelos, A Molina, A Mulero-Russe, A Mora-Boza, DJ Joshi, RP Sekaly, T Sulchek, SL Goudy, J Wrammert, K Roy, JM Boss, AF Coskun, CD Scharer, AJ García, JL Koff, A Singh	02/01/2025
Systems Immunology Approaches to Understanding Immune Responses in Acute Infection of Yellow Fever Patients. Journal of medical virology	ANA Gonçalves, PR Costa, MV Thomazella, CA Correia, MP Marmorato, JZC Dias, CGT Silveira, A Maestri, NB Cerqueira, CHV Moreira, R Buccheri, AC Félix, FM Martins, VE Maso, FM Ferreira, JDA Araújo, AP Vasconcelos, P Gonzalez-Dias, AN Pelletier, RP Sékaly, O Cabral-Marques, JGA Coelho-Dos-Reis, DM Ferreira, EG Kallas, HI Nakaya	12/01/2024
The immune-endocrine interplay in sex differential responses to viral infection and COVID-19. Trends in immunology	V D'Onofrio, RP Sékaly	12/01/2024
Assessing advances in three decades of clinical antiretroviral therapy on the HIV-1 reservoir. The Journal of clinical investigation	I González-Navarro, V Urrea, C Gálvez, MDC Garcia-Guerrero, S Morón-López, MC Puertas, E Grau, B Mothe, L Bailón, C Miranda, F García, L Leal, L Vandekerckhove, VC Marconi, RP Sekaly, B Clotet, J Martinez-Picado, M Salgado	11/29/2024
Unraveling SARS-CoV-2 Host-Response Heterogeneity through Longitudinal Molecular Subtyping. bioRxiv : the preprint server for biology	K Wang, Y Nie, C Maguire, C Syphurs, H Sheen, M Karoly, L Lapp, JP Gygi, ND Jayavelu, RK Patel, A Hoch, D Corry, F Kheradmand, GA McComsey, A Fernandez-Sesma, V Simon, JP Metcalf, NIA Higuita, WB Messer, MM Davis, KC Nadeau, M Kraft, C Bime, J Schaenman, D Erle, CS Calfee, MA Atkinson, SC Brackenridge, DA Hafler, A Shaw, A Rahman, CL Hough, LN Geng, A Ozonoff, EK Haddad, EF Reed, H van Bakel, S Kim-Schultz, F Krammer, M Wilson, W Eckalbar, S Bosinger, CR Langelier, RP Sekaly, RR Montgomery, HT Maecker, H Krumholz, E Melamed, H Steen, B Pulendran, AD Augustine, CB Cairns, N Rouphael, PM Becker, S Fourati, CP Shannon, KK Smolen, B Peters, SH Kleinstein, O Levy, MC Altman, A Iwasaki, J Diray-Arce, LIR Ehrlich, L Guan	11/25/2024
Dual blockade of IL-10 and PD-1 leads to control of SIV viral rebound following analytical treatment interruption. Nature immunology	S Pereira Ribeiro, Z Strongin, H Soudeyns, F Ten-Caten, K Ghneim, G Pacheco Sanchez, G Xavier de Medeiros, PM Del Rio Estrada, AN Pelletier, T Hoang, K Nguyen, J Harper, S Jean, C Wallace, R Balderas, JD Lifson, G Raghunathan, E Rimmer, CV Pastuskovas, G Wu, L Micci, RM Ribeiro, CN Chan, JD Estes, G Silvestri, DM Gorman, BJ Howell, DJ Hazuda, M Paiardini, RP Sekaly	10/01/2024
Administration of anti-HIV-1 broadly neutralizing monoclonal antibodies with increased affinity to Fcγ receptors during acute SHIV_AD8-EO infection. Nature communications	J Dias, G Fabozzi, S Fourati, X Chen, C Liu, DR Ambrozak, A Ransier, F Laboune, J Hu, W Shi, K March, AA Maximova, SD Schmidt, J Samsel, CA Talana, K Ernste, SH Ko, ME Lucas, PE Radecki, KL Boswell, Y Nishimura, JP Todd, MA Martin, C Petrovas, EA Boritz, NA Doria-Rose, DC Douek, RP Sékaly, JD Lifson, M Asokan, L Gama, JR Mascola, A Pegu, RA Koup	08/29/2024
Intestinal helminth infection impairs vaccine-induced T cell responses and protection against SARS-CoV-2 in mice. Science translational medicine	P Desai, CE Karl, B Ying, CY Liang, T Garcia-Salum, AC Santana, F Ten-Caten, null Joseph F Urban, SM Elbashir, DK Edwards, SP Ribeiro, LB Thackray, RP Sekaly, MS Diamond	08/21/2024
Neutralization activity in chronic HIV infection is characterized by a distinct programming of follicular helper CD4 T cells. bioRxiv : the preprint server for biology	E Moysi, AA Sharma, S O'Dell, S Georgakis, PM Del Rio Estrada, F Torres-Ruiz, MG Navarro, YAL Villalobos, SA Rios, G Reyes-Teran, MH Beddall, SH Ko, F Belinky, M Orfanakis, L de Leval, AB Enriquez, CM Buckner, S Moir, N Doria-Rose, E Boritz, JR Mascola, RP Sekaly, RA Koup, C Petrovas	08/03/2024
A pre-vaccination immune metabolic interplay determines the protective antibody response to a dengue virus vaccine. Cell reports	AN Pelletier, GP Sanchez, A Izmirly, M Watson, T Di Pucchio, KI Carvalho, A Filali-Mouhim, E Paramithiotis, MDCST Timenetsky, AR Precioso, J Kalil, MS Diamond, EK Haddad, EG Kallas, RP Sekaly	07/23/2024
Distinct SIV-specific CD8⁺ T cells in the lymph node exhibit simultaneous effector and stem-like profiles and are associated with limited SIV persistence. Nature immunology	Z Strongin, L Raymond Marchand, C Deleage, MB Pampena, MA Cardenas, CM Beusch, TN Hoang, EA Urban, M Gourves, K Nguyen, GK Tharp, S Lapp, AR Rahmberg, J Harper, PM Del Rio Estrada, M Gonzalez-Navarro, F Torres-Ruiz, YA Luna-Villalobos, S Avila-Rios, G Reyes-Teran, R Sekaly, G Silvestri, DA Kulpa, A Saez-Cirion, JM Brenchley, SE Bosinger, DE Gordon, MR Betts, HT Kissick, M Paiardini	07/01/2024
Single-cell analysis reveals an antiviral network that controls Zika virus infection in human dendritic cells. Journal of virology	KM Moore, A-N Pelletier, S Lapp, A Metz, GK Tharp, M Lee, SS Bhasin, M Bhasin, R-P Sékaly, SE Bosinger, MS Suthar	05/14/2024
Integrated longitudinal multiomics study identifies immune programs associated with acute COVID-19 severity and mortality. The Journal of clinical investigation	JP Gygi, C Maguire, RK Patel, P Shinde, A Konstorum, CP Shannon, L Xu, A Hoch, ND Jayavelu, EK Haddad, EF Reed, M Kraft, GA McComsey, JP Metcalf, A Ozonoff, D Esserman, CB Cairns, N Rouphael, SE Bosinger, S Kim-Schulze, F Krammer, LB Rosen, H van Bakel, M Wilson, WL Eckalbar, HT Maecker, CR Langelier, H Steen, MC Altman, RR Montgomery, O Levy, E Melamed, B Pulendran, J Diray-Arce, KK Smolen, GK Fragiadakis, PM Becker, RP Sekaly, LI Ehrlich, S Fourati, B Peters, SH Kleinstein, L Guan	05/01/2024
Intestinal helminth infection impairs vaccine-induced T cell responses and protection against SARS-CoV-2. bioRxiv : the preprint server for biology	P Desai, CE Karl, B Ying, CY Liang, T Garcia-Salum, AC Santana, FT Caten, JF Urban, SM Elbashir, DK Edwards, SP Ribeiro, LB Thackray, RP Sekaly, MS Diamond	01/15/2024
Features of acute COVID-19 associated with post-acute sequelae of SARS-CoV-2 phenotypes: results from the IMPACC study. Nature communications	A Ozonoff, ND Jayavelu, S Liu, E Melamed, CE Milliren, J Qi, LN Geng, GA McComsey, CB Cairns, LR Baden, J Schaenman, AC Shaw, H Samaha, V Seyfert-Margolis, F Krammer, LB Rosen, H Steen, C Syphurs, R Dandekar, CP Shannon, RP Sekaly, LIR Ehrlich, DB Corry, F Kheradmand, MA Atkinson, SC Brakenridge, NIA Higuita, JP Metcalf, CL Hough, WB Messer, B Pulendran, KC Nadeau, MM Davis, AF Sesma, V Simon, H van Bakel, S Kim-Schulze, DA Hafler, O Levy, M Kraft, C Bime, EK Haddad, CS Calfee, DJ Erle, CR Langelier, W Eckalbar, SE Bosinger, B Peters, SH Kleinstein, EF Reed, AD Augustine, J Diray-Arce, HT Maecker, MC Altman, RR Montgomery, PM Becker, N Rouphael	01/03/2024
Heightened expression of type I interferon signaling genes in CD4⁺ T cells from acutely HIV-1-infected women is associated with lower viral loads. Frontiers in immunology	E El-Badry, L Chen, K Ghneim, Z Li, K Brooks, J Rhodes, R Sekaly, W Kilembe, S Allen, H Wu, E Hunter	01/01/2024
Corrigendum to "Phenotypes of disease severity in a cohort of hospitalized COVID-19 patients: results from the IMPACC study" [eBioMedicine 83 (2022) 104208]. EBioMedicine	A Ozonoff, J Schaenman, ND Jayavelu, CE Milliren, CS Calfee, CB Cairns, M Kraft, LR Baden, AC Shaw, F Krammer, H van Bakel, DA Esserman, S Liu, AF Sesma, V Simon, DA Hafler, RR Montgomery, SH Kleinstein, O Levy, C Bime, EK Haddad, DJ Erle, B Pulendran, KC Nadeau, MM Davis, CL Hough, WB Messer, NI Agudelo Higuita, JP Metcalf, MA Atkinson, SC Brakenridge, D Corry, F Kheradmand, LIR Ehrlich, E Melamed, GA McComsey, R Sekaly, J Diray-Arce, B Peters, AD Augustine, EF Reed, MC Altman, PM Becker, N Rouphael	12/01/2023
Integrated longitudinal multi-omics study identifies immune programs associated with COVID-19 severity and mortality in 1152 hospitalized participants. bioRxiv : the preprint server for biology	JP Gygi, C Maguire, RK Patel, P Shinde, A Konstorum, CP Shannon, L Xu, A Hoch, ND Jayavelu, I Network, EK Haddad, EF Reed, M Kraft, GA McComsey, J Metcalf, A Ozonoff, D Esserman, CB Cairns, N Rouphael, SE Bosinger, S Kim-Schulze, F Krammer, LB Rosen, H van Bakel, M Wilson, W Eckalbar, H Maecker, CR Langelier, H Steen, MC Altman, RR Montgomery, O Levy, E Melamed, B Pulendran, J Diray-Arce, KK Smolen, GK Fragiadakis, PM Becker, AD Augustine, RP Sekaly, LIR Ehrlich, S Fourati, B Peters, SH Kleinstein, L Guan	11/06/2023
Regulation of Immune Homeostasis, Inflammation, and HIV Persistence by the Microbiome, Short-Chain Fatty Acids, and Bile Acids. Annual review of virology	AB Enriquez, F Ten Caten, K Ghneim, RP Sekaly, AA Sharma	09/29/2023
Schistosoma mansoni infection alters the host pre-vaccination environment resulting in blunted Hepatitis B vaccination immune responses. PLoS neglected tropical diseases	R Muir, T Metcalf, S Fourati, Y Bartsch, J Kyosiimire-Lugemwa, G Canderan, G Alter, E Muyanja, B Okech, T Namatovu, I Namara, A Namuniina, A Ssetaala, J Mpendo, A Nanvubya, PK Kitandwe, BS Bagaya, N Kiwanuka, J Nassuna, VM Biribawa, AM Elliott, CJ de Dood, W Senyonga, P Balungi, P Kaleebu, Y Mayanja, M Odongo, J Connors, P Fast, MA Price, PLAM Corstjens, GJ van Dam, A Kamali, RP Sekaly, EK Haddad	07/01/2023
Multi-omic longitudinal study reveals immune correlates of clinical course among hospitalized COVID-19 patients. Cell reports. Medicine	J Diray-Arce, S Fourati, N Doni Jayavelu, R Patel, C Maguire, AC Chang, R Dandekar, J Qi, BH Lee, P van Zalm, A Schroeder, E Chen, A Konstorum, A Brito, JP Gygi, A Kho, J Chen, S Pawar, AS Gonzalez-Reiche, A Hoch, CE Milliren, JA Overton, K Westendorf, CB Cairns, N Rouphael, SE Bosinger, S Kim-Schulze, F Krammer, L Rosen, ND Grubaugh, H van Bakel, M Wilson, J Rajan, H Steen, W Eckalbar, C Cotsapas, CR Langelier, O Levy, MC Altman, H Maecker, RR Montgomery, EK Haddad, RP Sekaly, D Esserman, A Ozonoff, PM Becker, AD Augustine, L Guan, B Peters, SH Kleinstein	06/20/2023
Carbohydrate ligand engagement with CD11b enhances differentiation of tumor-associated myeloid cells for immunotherapy of solid cancers. Journal for immunotherapy of cancer	V Roche, V Sandoval, C Wolford, Z Senders, JA Kim, SP Ribeiro, AY Huang, RP Sekaly, J Lyons, M Zhang	06/01/2023
TREM2⁺ and interstitial-like macrophages orchestrate airway inflammation in SARS-CoV-2 infection in rhesus macaques. Nature communications	AA Upadhyay, EG Viox, TN Hoang, AK Boddapati, M Pino, MY Lee, J Corry, Z Strongin, DA Cowan, EN Beagle, TR Horton, S Hamilton, H Aoued, JL Harper, CT Edwards, K Nguyen, KL Pellegrini, GK Tharp, A Piantadosi, RD Levit, RR Amara, SM Barratt-Boyes, SP Ribeiro, RP Sekaly, TH Vanderford, RF Schinazi, M Paiardini, SE Bosinger	04/06/2023
Schistosoma mansoni infection alters the host pre-vaccination environment resulting in blunted Hepatitis B vaccination immune responses. medRxiv : the preprint server for health sciences	R Muir, T Metcalf, S Fourati, Y Bartsch, JK Lugemwa, G Canderan, G Alter, E Muyanja, B Okech, T Namatovu, I Namara, A Namuniina, A Ssetaala, J Mpendo, A Nanvubya, PK Kitandwe, BS Bagaya, N Kiwanuka, J Nassuna, VM Biribawa, AM Elliott, CJ de Dood, W Senyonga, P Balungi, P Kaleebu, Y Mayanja, M Odongo, P Fast, MA Price, PLAM Corstjens, GJ van Dam, A Kamali, RP Sekaly, EK Haddad	02/26/2023
HIV vaccine candidate efficacy in female macaques mediated by cAMP-dependent efferocytosis and V2-specific ADCC. Nature communications	M Bissa, S Kim, V Galli, S Fourati, S Sarkis, A Arakelyan, IS de Castro, MA Rahman, S Fujiwara, M Vaccari, JA Tomalka, JD Stamos, L Schifanella, G Gorini, R Moles, A Gutowska, G Ferrari, A Lobanov, DC Montefiori, GW Nelson, MC Cam, M Chakhtoura, EK Haddad, MN Doster, K McKinnon, S Brown, DJ Venzon, H Choo-Wosoba, MW Breed, KE Killoran, J Kramer, L Margolis, RP Sekaly, GL Hager, G Franchini	02/02/2023
Pan-vaccine analysis reveals innate immune endotypes predictive of antibody responses to vaccination. Nature immunology	S Fourati, LE Tomalin, MP Mulè, DG Chawla, B Gerritsen, D Rychkov, E Henrich, HER Miller, T Hagan, J Diray-Arce, P Dunn, O Levy, R Gottardo, MM Sarwal, JS Tsang, M Suárez-Fariñas, B Pulendran, SH Kleinstein, RP Sékaly	12/01/2022
Transcriptional atlas of the human immune response to 13 vaccines reveals a common predictor of vaccine-induced antibody responses. Nature immunology	T Hagan, B Gerritsen, LE Tomalin, S Fourati, MP Mulè, DG Chawla, D Rychkov, E Henrich, HER Miller, J Diray-Arce, P Dunn, A Lee, O Levy, R Gottardo, MM Sarwal, JS Tsang, M Suárez-Fariñas, RP Sékaly, SH Kleinstein, B Pulendran	12/01/2022
The Immune Signatures data resource, a compendium of systems vaccinology datasets. Scientific data	J Diray-Arce, HER Miller, E Henrich, B Gerritsen, MP Mulè, S Fourati, J Gygi, T Hagan, L Tomalin, D Rychkov, D Kazmin, DG Chawla, H Meng, P Dunn, J Campbell, M Sarwal, JS Tsang, O Levy, B Pulendran, R Sekaly, A Floratos, R Gottardo, SH Kleinstein, M Suárez-Fariñas	10/20/2022
Phenotypes of disease severity in a cohort of hospitalized COVID-19 patients: Results from the IMPACC study. EBioMedicine	A Ozonoff, J Schaenman, ND Jayavelu, CE Milliren, CS Calfee, CB Cairns, M Kraft, LR Baden, AC Shaw, F Krammer, H van Bakel, DA Esserman, S Liu, AF Sesma, V Simon, DA Hafler, RR Montgomery, SH Kleinstein, O Levy, C Bime, EK Haddad, DJ Erle, B Pulendran, KC Nadeau, MM Davis, CL Hough, WB Messer, NIA Higuita, JP Metcalf, MA Atkinson, SC Brakenridge, D Corry, F Kheradmand, LIR Ehrlich, E Melamed, GA McComsey, R Sekaly, J Diray-Arce, B Peters, AD Augustine, EF Reed, MC Altman, PM Becker, N Rouphael	09/01/2022
Innate antiviral immunity: how prior exposures can guide future responses. Trends in immunology	JA Tomalka, MS Suthar, MS Diamond, RP Sekaly	09/01/2022
Targeted Marrow Irradiation Intensification of Reduced-Intensity Fludarabine/Busulfan Conditioning for Allogeneic Hematopoietic Stem Cell Transplantation. Transplantation and cellular therapy	N Ali, AA Sharma, ACP de Rezende, F Otegbeye, BM Latif, MN Kerbauy, BW Cooper, G Sanchez, L Metheny, SK Bal, R Sakuraba, BK Tomlinson, KM Boughan, L Kerbauy, E Malek, AF Ribeiro, M Gallogly, D Mansur, G Pereira, E Weltman, RP Sekaly, M de Lima, PF Caimi, N Hamerschlak	07/01/2022
Mission, Organization, and Future Direction of the Serological Sciences Network for COVID-19 (SeroNet) Epidemiologic Cohort Studies. Open forum infectious diseases	JC Figueiredo, FR Hirsch, LH Kushi, WN Nembhard, JM Crawford, N Mantis, L Finster, NM Merin, A Merchant, KL Reckamp, GY Melmed, J Braun, D McGovern, S Parekh, DA Corley, N Zohoori, BC Amick, R Du, PK Gregersen, B Diamond, E Taioli, C Sariol, A Espino, D Weiskopf, A Gifoni, J Brien, W Hanege, M Lipsitch, DA Zidar, A Scheck McAlearney, A Wajnberg, J LaBaer, E Yvonne Lewis, RA Binder, AM Moormann, C Forconi, S Forrester, J Batista, J Schieffelin, D Kim, G Biancon, J VanOudenhove, S Halene, R Fan, DH Barouch, G Alter, S Pinninti, SB Boppana, SK Pati, M Latting, AH Karaba, J Roback, R Sekaly, A Neish, AM Brincks, DA Granger, AB Karger, B Thyagarajan, SN Thomas, SL Klein, AL Cox, T Lucas, D Furr-Holden, K Key, N Jones, J Wrammerr, M Suthar, S Yu Wong, NM Bowman, V Simon, LD Richardson, R McBride, F Krammer, M Rana, J Kennedy, K Boehme, C Forrest, SW Granger, CD Heaney, M Knight Lapinski, S Wallet, RS Baric, L Schifanella, M Lopez, S Fernández, E Kenah, AR Panchal, WJ Britt, I Sanz, M Dhodapkar, R Ahmed, LA Bartelt, AJ Markmann, JT Lin, RS Hagan, MC Wolfgang, J Skarbinski	06/01/2022
Gut-derived bacterial toxins impair memory CD4+ T cell mitochondrial function in HIV-1 infection. The Journal of clinical investigation	B Ferrari, AC Da Silva, KH Liu, EV Saidakova, LB Korolevskaya, KV Shmagel, C Shive, G Pacheco Sanchez, M Retuerto, AA Sharma, K Ghneim, L Noel-Romas, B Rodriguez, MA Ghannoum, PP Hunt, SG Deeks, AD Burgener, DP Jones, MA Dobre, VC Marconi, RP Sekaly, SA Younes	05/02/2022
Lymph node CXCR5+ NK cells associate with control of chronic SHIV infection. JCI insight	SA Rahman, JM Billingsley, AA Sharma, TM Styles, S Govindaraj, U Shanmugasundaram, H Babu, SP Riberio, SA Ali, GK Tharp, C Ibegbu, SN Waggoner, RP Johnson, RP Sekaly, F Villinger, SE Bosinger, RR Amara, V Velu	04/22/2022
Interleukin-10 contributes to reservoir establishment and persistence in SIV-infected macaques treated with antiretroviral therapy. The Journal of clinical investigation	J Harper, SP Ribeiro, CN Chan, M Aid, C Deleage, L Micci, M Pino, B Cervasi, G Raghunathan, E Rimmer, G Ayanoglu, G Wu, N Shenvi, RJ Barnard, GQ Del Prete, K Busman-Sahay, G Silvestri, DA Kulpa, SE Bosinger, KA Easley, BJ Howell, D Gorman, DJ Hazuda, JD Estes, RP Sekaly, M Paiardini	04/15/2022
IFN-α blockade during ART-treated SIV infection lowers tissue vDNA, rescues immune function, and improves overall health. JCI insight	LA Swainson, AA Sharma, K Ghneim, SP Ribeiro, P Wilkinson, RM Dunham, RG Albright, S Wong, JD Estes, M Piatak, SG Deeks, PW Hunt, RP Sekaly, JM McCune	03/08/2022
Cocaethylene, simultaneous alcohol and cocaine use, and liver fibrosis in people living with and without HIV. Drug and alcohol dependence	JA Tamargo, KE Sherman, RP Sékaly, R Bordi, D Schlatzer, S Lai, JH Khalsa, RN Mandler, RL Ehman, MK Baum	03/01/2022
Fighting the SARS-CoV-2 pandemic requires a global approach to understanding the heterogeneity of vaccine responses. Nature immunology	JA Tomalka, MS Suthar, SG Deeks, RP Sekaly	03/01/2022
Immune mechanisms in cancer patients that lead to poor outcomes of SARS-CoV-2 infection. Translational research : the journal of laboratory and clinical medicine	MB Latif, S Shukla, PM Del Rio Estrada, SP Ribeiro, RP Sekaly, AA Sharma	03/01/2022
Translating known drivers of COVID-19 disease severity to design better SARS-CoV-2 vaccines. Current opinion in virology	AN Pelletier, RP Sekaly, JA Tomalka	02/01/2022
Induction of thymic atrophy and loss of thymic output by type-I interferons during chronic viral infection. Virology	T Démoulins, ML Baron, D Gauchat, N Kettaf, SJ Reed, T Charpentier, U Kalinke, A Lamarre, R Ahmed, RP Sékaly, S Sarkar, V Kalia	02/01/2022
Pembrolizumab induces HIV latency reversal in people living with HIV and cancer on antiretroviral therapy. Science translational medicine	TS Uldrick, SV Adams, R Fromentin, M Roche, SP Fling, PH Gonçalves, K Lurain, R Ramaswami, CJ Wang, RJ Gorelick, JL Welker, L O'Donoghue, H Choudhary, JD Lifson, TA Rasmussen, A Rhodes, C Tumpach, R Yarchoan, F Maldarelli, MA Cheever, R Sékaly, N Chomont, SG Deeks, SR Lewin	01/26/2022
Randomized Trial of Ruxolitinib in Antiretroviral-Treated Adults With Human Immunodeficiency Virus. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America	VC Marconi, C Moser, C Gavegnano, SG Deeks, MM Lederman, ET Overton, A Tsibris, PW Hunt, A Kantor, RP Sekaly, R Tressler, C Flexner, SJ Hurwitz, D Moisi, B Clagett, WR Hardin, C Del Rio, RF Schinazi, JJ Lennox	01/07/2022
Chronic Alcohol Exposure Among People Living with HIV Is Associated with Innate Immune Activation and Alterations in Monocyte Phenotype and Plasma Cytokine Profile. Frontiers in immunology	ML Underwood, B Park, LS Uebelhoer, G Gu, LE Kunkel, PT Korthuis, RR Cook, RP Sekaly, SP Ribeiro, CL Lancioni	01/01/2022
Pre-vaccination frequency of circulatory Tfh is associated with robust immune response to TV003 dengue vaccine. PLoS pathogens	AM Izmirly, AN Pelletier, J Connors, B Taramangalam, SO Alturki, EA Gordon, SO Alturki, JC Mell, G Swaminathan, V Karthik, MA Kutzler, EG Kallas, RP Sekaly, EK Haddad	01/01/2022
Multiple site place-of-care manufactured anti-CD19 CAR-T cells induce high remission rates in B-cell malignancy patients. Nature communications	M Maschan, PF Caimi, J Reese-Koc, GP Sanchez, AA Sharma, O Molostova, L Shelikhova, D Pershin, A Stepanov, Y Muzalevskii, VG Suzart, F Otegbeye, D Wald, Y Xiong, D Wu, A Knight, I Oparaocha, B Ferencz, A Roy, A Worden, W Kruger, M Kadan, D Schneider, R Orentas, RP Sekaly, M de Lima, B Dropulić	12/10/2021
Implications of a highly divergent dengue virus strain for cross-neutralization, protection, and vaccine immunity. Cell host & microbe	RE Chen, BK Smith, JM Errico, DN Gordon, ES Winkler, LA VanBlargan, C Desai, SA Handley, KA Dowd, E Amaro-Carambot, MJ Cardosa, CA Sariol, EG Kallas, RP Sékaly, N Vasilakis, DH Fremont, SS Whitehead, TC Pierson, MS Diamond	11/10/2021
TREM2+ and interstitial macrophages orchestrate airway inflammation in SARS-CoV-2 infection in rhesus macaques. bioRxiv : the preprint server for biology	AA Upadhyay, TN Hoang, M Pino, AK Boddapati, EG Viox, MYH Lee, J Corry, Z Strongin, DA Cowan, EN Beagle, TR Horton, S Hamilton, H Aoued, JL Harper, K Nguyen, KL Pellegrini, GK Tharp, A Piantadosi, RD Levit, RR Amara, SM Barratt-Boyes, SP Ribeiro, RP Sekaly, TH Vanderford, RF Schinazi, M Paiardini, SE Bosinger	10/05/2021
Single cell RNA sequencing of AML initiating cells reveals RNA-based evolution during disease progression. Leukemia	LC Stetson, D Balasubramanian, SP Ribeiro, T Stefan, K Gupta, X Xu, S Fourati, A Roe, Z Jackson, R Schauner, A Sharma, B Tamilselvan, S Li, M de Lima, TH Hwang, R Balderas, Y Saunthararajah, J Maciejewski, T LaFramboise, JS Barnholtz-Sloan, RP Sekaly, DN Wald	10/01/2021
The transcription factor CREB1 is a mechanistic driver of immunogenicity and reduced HIV-1 acquisition following ALVAC vaccination. Nature immunology	JA Tomalka, AN Pelletier, S Fourati, MB Latif, A Sharma, K Furr, K Carlson, M Lifton, A Gonzalez, P Wilkinson, G Franchini, R Parks, N Letvin, N Yates, K Seaton, G Tomaras, J Tartaglia, ML Robb, NL Michael, R Koup, B Haynes, S Santra, RP Sekaly	10/01/2021
Looking for pathways related to COVID-19: confirmation of pathogenic mechanisms by SARS-CoV-2-host interactome. Cell death & disease	F Messina, E Giombini, C Montaldo, AA Sharma, A Zoccoli, RP Sekaly, F Locatelli, A Zumla, M Maeurer, MR Capobianchi, FN Lauria, G Ippolito	08/12/2021
Increased homeostatic cytokines and stability of HIV-infected memory CD4 T-cells identify individuals with suboptimal CD4 T-cell recovery on-ART. PLoS pathogens	M Pino, S Pereira Ribeiro, A Pagliuzza, K Ghneim, A Khan, E Ryan, JL Harper, CT King, S Welbourn, L Micci, S Aldrete, KA Delman, T Stuart, M Lowe, JM Brenchley, CA Derdeyn, K Easley, RP Sekaly, N Chomont, M Paiardini, VC Marconi	08/01/2021
Translocated microbiome composition determines immunological outcome in treated HIV infection. Cell	K Nganou-Makamdop, A Talla, AA Sharma, S Darko, A Ransier, F Laboune, JG Chipman, GJ Beilman, T Hoskuldsson, S Fourati, TE Schmidt, S Arumugam, NS Lima, D Moon, S Callisto, J Schoephoerster, J Tomalka, P Mugyenyi, F Ssali, P Muloma, P Ssengendo, AR Leda, RK Cheu, JK Flynn, A Morou, E Brunet-Ratnasingham, B Rodriguez, MM Lederman, DE Kaufmann, NR Klatt, C Kityo, JM Brenchley, TW Schacker, RP Sekaly, DC Douek	07/22/2021
A yeast expressed RBD-based SARS-CoV-2 vaccine formulated with 3M-052-alum adjuvant promotes protective efficacy in non-human primates. Science immunology	M Pino, T Abid, S Pereira Ribeiro, VV Edara, K Floyd, JC Smith, MB Latif, G Pacheco-Sanchez, D Dutta, S Wang, S Gumber, S Kirejczyk, J Cohen, RL Stammen, SM Jean, JS Wood, F Connor-Stroud, J Pollet, WH Chen, J Wei, B Zhan, J Lee, Z Liu, U Strych, N Shenvi, K Easley, D Weiskopf, A Sette, J Pollara, D Mielke, H Gao, N Eisel, CC LaBranche, X Shen, G Ferrari, GD Tomaras, DC Montefiori, RP Sekaly, TH Vanderford, MA Tomai, CB Fox, MS Suthar, PA Kozlowski, PJ Hotez, M Paiardini, ME Bottazzi, SP Kasturi	07/15/2021
"Go", "No Go," or "Where to Go"; does microbiota dictate T cell exhaustion, programming, and HIV persistence? Current opinion in HIV and AIDS	S Shukla, S Kumari, SK Bal, DC Monaco, SP Ribeiro, RP Sekaly, AA Sharma	07/01/2021
Interleukin-15 response signature predicts RhCMV/SIV vaccine efficacy. PLoS pathogens	F Barrenäs, SG Hansen, L Law, C Driscoll, RR Green, E Smith, J Chang, I Golez, T Urion, X Peng, L Whitmore, D Newhouse, CM Hughes, D Morrow, KT Randall, AN Selseth, JC Ford, RM Gilbride, BE Randall, E Ainslie, K Oswald, R Shoemaker, R Fast, WJ Bosche, MK Axthelm, Y Fukazawa, GN Pavlakis, BK Felber, S Fourati, RP Sekaly, JD Lifson, J Komorowski, E Kosmider, D Shao, W Song, PT Edlefsen, LJ Picker, M Gale	07/01/2021
Nonstructured Treatment Interruptions Are Associated With Higher Human Immunodeficiency Virus Reservoir Size Measured by Intact Proviral DNA Assay in People Who Inject Drugs. The Journal of infectious diseases	GD Kirk, J Astemborski, SH Mehta, KD Ritter, GM Laird, R Bordi, R Sekaly, JD Siliciano, RF Siliciano	06/04/2021
Acquisition of optimal TFH cell function is defined by specific molecular, positional, and TCR dynamic signatures. Proceedings of the National Academy of Sciences of the United States of America	K Padhan, E Moysi, A Noto, A Chassiakos, K Ghneim, MM Perra, S Shah, V Papaioannou, G Fabozzi, DR Ambrozak, A Poultsidi, M Ioannou, C Fenwick, S Darko, DC Douek, RP Sekaly, G Pantaleo, RA Koup, C Petrovas	05/04/2021
Multi-omics analyses reveal that HIV-1 alters CD4⁺ T cell immunometabolism to fuel virus replication. Nature immunology	H Guo, Q Wang, K Ghneim, L Wang, E Rampanelli, E Holley-Guthrie, L Cheng, C Garrido, DM Margolis, LA Eller, ML Robb, RP Sekaly, X Chen, L Su, JP Ting	04/01/2021
NLRP3 inflammasome induces CD4+ T cell loss in chronically HIV-1-infected patients. The Journal of clinical investigation	C Zhang, JW Song, HH Huang, X Fan, L Huang, JN Deng, B Tu, K Wang, J Li, MJ Zhou, CX Yang, QW Zhao, T Yang, LF Wang, JY Zhang, RN Xu, YM Jiao, M Shi, F Shao, RP Sékaly, FS Wang	03/15/2021
TCF-1 regulates HIV-specific CD8+ T cell expansion capacity. JCI insight	RL Rutishauser, CDT Deguit, J Hiatt, F Blaeschke, TL Roth, L Wang, KA Raymond, CE Starke, JC Mudd, W Chen, C Smullin, R Matus-Nicodemos, R Hoh, M Krone, FM Hecht, CD Pilcher, JN Martin, RA Koup, DC Douek, JM Brenchley, RP Sékaly, SK Pillai, A Marson, SG Deeks, JM McCune, PW Hunt	02/08/2021
Baricitinib treatment resolves lower-airway macrophage inflammation and neutrophil recruitment in SARS-CoV-2-infected rhesus macaques. Cell	TN Hoang, M Pino, AK Boddapati, EG Viox, CE Starke, AA Upadhyay, S Gumber, M Nekorchuk, K Busman-Sahay, Z Strongin, JL Harper, GK Tharp, KL Pellegrini, S Kirejczyk, K Zandi, S Tao, TR Horton, EN Beagle, EA Mahar, MYH Lee, J Cohen, SM Jean, JS Wood, F Connor-Stroud, RL Stammen, OM Delmas, S Wang, KA Cooney, MN Sayegh, L Wang, PD Filev, D Weiskopf, G Silvestri, J Waggoner, A Piantadosi, SP Kasturi, H Al-Shakhshir, SP Ribeiro, RP Sekaly, RD Levit, JD Estes, TH Vanderford, RF Schinazi, SE Bosinger, M Paiardini	01/21/2021
Neonatal T Helper 17 Responses Are Skewed Towards an Immunoregulatory Interleukin-22 Phenotype. Frontiers in immunology	HR Razzaghian, Z Sharafian, AA Sharma, GK Boyce, K Lee, R Da Silva, PC Orban, RP Sekaly, CJ Ross, PM Lavoie	01/01/2021
Prophylactic Tocilizumab Prior to Anti-CD19 CAR-T Cell Therapy for Non-Hodgkin Lymphoma. Frontiers in immunology	PF Caimi, G Pacheco Sanchez, A Sharma, F Otegbeye, N Ahmed, P Rojas, S Patel, S Kleinsorge Block, J Schiavone, K Zamborsky, K Boughan, A Hillian, J Reese-Koc, M Maschan, B Dropulic, RP Sekaly, M de Lima	01/01/2021
Transcriptional and Immunologic Correlates of Response to Pandemic Influenza Vaccine in Aviremic, HIV-Infected Children. Frontiers in immunology	LR de Armas, V George, A Filali-Mouhim, C Steel, A Parmigiani, CK Cunningham, A Weinberg, L Trautmann, RP Sekaly, MJ Cameron, S Pahwa	01/01/2021
Is France Once Again Looking for a Scapegoat? Pathogens & immunity	MM Lederman, JS Flier, P Hale, AT Haase, W Powderly, P Reiss, G Silvestri, RP Sekaly, M Paiardini, D Weissman, DR Kuritzkes, LH Calabrese, P Agre, G Reyes-Teran, AL Landay, S Lewin, DD Richman, P Volberding, PW Hunt, M Schechter	01/01/2021
HLA polymorphism and tapasin independence influence outcomes of HIV and dengue virus infection. Proceedings of the National Academy of Sciences of the United States of America	T Di Pucchio, RP Sekaly	12/15/2020
Passive Transfer of Vaccine-Elicited Antibodies Protects against SIV in Rhesus Macaques. Cell	G Alter, WH Yu, A Chandrashekar, EN Borducchi, K Ghneim, A Sharma, R Nedellec, KR McKenney, C Linde, T Broge, TJ Suscovich, T Linnekin, P Abbink, NB Mercado, JP Nkolola, K McMahan, EA Bondzie, V Hamza, L Peter, N Kordana, S Mahrokhian, MS Seaman, W Li, MG Lewis, DA Lauffenburger, L Hangartner, RP Sekaly, DH Barouch	10/01/2020
Baricitinib treatment resolves lower airway inflammation and neutrophil recruitment in SARS-CoV-2-infected rhesus macaques. bioRxiv : the preprint server for biology	TN Hoang, M Pino, AK Boddapati, EG Viox, CE Starke, AA Upadhyay, S Gumber, K Busman-Sahay, Z Strongin, JL Harper, GK Tharp, KL Pellegrini, S Kirejczyk, K Zandi, S Tao, TR Horton, EN Beagle, EA Mahar, MY Lee, J Cohen, SM Jean, JS Wood, F Connor-Stroud, RL Stammen, OM Delmas, S Wang, KA Cooney, MN Sayegh, L Wang, D Weiskopf, PD Filev, J Waggoner, A Piantadosi, SP Kasturi, H Al-Shakhshir, SP Ribeiro, RP Sekaly, RD Levit, JD Estes, TH Vanderford, RF Schinazi, SE Bosinger, M Paiardini	09/16/2020
Anisocytosis is Associated With Short-Term Mortality in COVID-19 and May Reflect Proinflammatory Signature in Uninfected Ambulatory Adults. Pathogens & immunity	A Hornick, N Tashtish, M Osnard, B Shah, A Bradigan, Z Albar, J Tomalka, J Dalton, A Sharma, RP Sekaly, R Hejal, DI Simon, DA Zidar, SG Al-Kindi	01/01/2020