Emergence of SARS-CoV-2 through recombination and strong purifying selection von Li, Xiaojun, Giorgi, Elena E., Marichann, Manukumar Honnayakanahalli, Foley, Brian, Xiao, Chuan, Kong, Xiang-Peng, Chen, Yue, Korber, Bette, Gao, Feng, Gnanakaran, S.

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Protective Efficacy of a Global HIV-1 Mosaic Vaccine against Heterologous SHIV Challenges in Rhesus Monkeys von Barouch, Dan H., Stephenson, Kathryn E., Borducchi, Erica N., Smith, Kaitlin, Stanley, Kelly, McNally, Anna G., Liu, Jinyan, Abbink, Peter, Maxfield, Lori F., Seaman, Michael S., Dugast, Anne-Sophie, Alter, Galit, Ferguson, Melissa, Li, Wenjun, Earl, Patricia L., Moss, Bernard, Giorgi, Elena E., Szinger, James J., Eller, Leigh Anne, Billings, Erik A., Rao, Mangala, Tovanabutra, Sodsai, Sanders-Buell, Eric, Weijtens, Mo, Pau, Maria G., Schuitemaker, Hanneke, Robb, Merlin L., Kim, Jerome H., Korber, Bette T., Michael, Nelson L.

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Phenotypic properties of transmitted founder HIV-1 von Parrish, Nicholas F., Gao, Feng, Li, Hui, Giorgi, Elena E., Barbian, Hannah J., Parrish, Erica H., Zajic, Lara, Iyer, Shilpa S., Decker, Julie M., Kumar, Amit, Hora, Bhavna, Berg, Anna, Cai, Fangping, Hopper, Jennifer, Denny, Thomas N., Ding, Haitao, Ochsenbauer, Christina, Kappes, John C., Galimidi, Rachel P., West, Anthony P., Bjorkman, Pamela J., Wilen, Craig B., Doms, Robert W., O'Brien, Meagan, Bhardwaj, Nina, Borrow, Persephone, Haynes, Barton F., Muldoon, Mark, Theiler, James P., Korber, Bette, Shaw, George M., Hahn, Beatrice H.

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Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection von Song, Hongshuo, Giorgi, Elena E., Ganusov, Vitaly V., Cai, Fangping, Athreya, Gayathri, Yoon, Hyejin, Carja, Oana, Hora, Bhavna, Hraber, Peter, Romero-Severson, Ethan, Jiang, Chunlai, Li, Xiaojun, Wang, Shuyi, Li, Hui, Salazar-Gonzalez, Jesus F., Salazar, Maria G., Goonetilleke, Nilu, Keele, Brandon F., Montefiori, David C., Cohen, Myron S., Shaw, George M., Hahn, Beatrice H., McMichael, Andrew J., Haynes, Barton F., Korber, Bette, Bhattacharya, Tanmoy, Gao, Feng

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Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing von Fischer, Will, Ganusov, Vitaly V, Giorgi, Elena E, Hraber, Peter T, Keele, Brandon F, Leitner, Thomas, Han, Cliff S, Gleasner, Cheryl D, Green, Lance, Lo, Chien-Chi, Nag, Ambarish, Wallstrom, Timothy C, Wang, Shuyi, McMichael, Andrew J, Haynes, Barton F, Hahn, Beatrice H, Perelson, Alan S, Borrow, Persephone, Shaw, George M, Bhattacharya, Tanmoy, Korber, Bette T

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A novel HIV triple broadly neutralizing antibody (bNAb) combination-based passive immunization of infant rhesus macaques achieves durable protective plasma neutralization levels an... von Dankwa, Sedem, Kosman, Christina, Dennis, Maria, Giorgi, Elena E, Vuong, Kenneth, Pahountis, Ioanna, Garza, Ashley, Binuya, Christian, McCarthy, Janice, Mayer, Bryan T, Ngo, Julia T, Enemuo, Chiamaka A, Carnathan, Diane G, Stanfield-Oakley, Sherry, Berendam, Stella J, Weinbaum, Carolyn, Engelman, Kathleen, Magnani, Diogo M, Chan, Cliburn, Ferrari, Guido, Silvestri, Guido, Amara, Rama R, Chahroudi, Ann, Permar, Sallie R, Fouda, Genevieve G, Goswami, Ria

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Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection von Salazar-Gonzalez, Jesus F, Salazar, Maria G, Keele, Brandon F, Learn, Gerald H, Giorgi, Elena E, Li, Hui, Decker, Julie M, Wang, Shuyi, Baalwa, Joshua, Kraus, Matthias H, Parrish, Nicholas F, Shaw, Katharina S, Guffey, M Brad, Bar, Katharine J, Davis, Katie L, Ochsenbauer-Jambor, Christina, Kappes, John C, Saag, Michael S, Cohen, Myron S, Mulenga, Joseph, Derdeyn, Cynthia A, Allen, Susan, Hunter, Eric, Markowitz, Martin, Hraber, Peter, Perelson, Alan S, Bhattacharya, Tanmoy, Haynes, Barton F, Korber, Bette T, Hahn, Beatrice H, Shaw, George M

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Viral Envelope Evolution in Simian-HIV-Infected Neonate and Adult-Dam Pairs of Rhesus Macaques von Giorgi, Elena E, Li, Hui, Hora, Bhavna, Shaw, George M, Wagh, Kshitij, Williams, Wilton B

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Neutralization profiles of HIV-1 viruses from the VRC01 Antibody Mediated Prevention (AMP) trials von Mkhize, Nonhlanhla N, Yssel, Anna E J, Kaldine, Haajira, van Dorsten, Rebecca T, Woodward Davis, Amanda S, Beaume, Nicolas, Matten, David, Lambson, Bronwen, Modise, Tandile, Kgagudi, Prudence, York, Talita, Westfall, Dylan H, Giorgi, Elena E, Korber, Bette, Anthony, Colin, Mapengo, Rutendo E, Bekker, Valerie, Domin, Elizabeth, Eaton, Amanda, Deng, Wenjie, DeCamp, Allan, Huang, Yunda, Gilbert, Peter B, Gwashu-Nyangiwe, Asanda, Thebus, Ruwayhida, Ndabambi, Nonkululeko, Mielke, Dieter, Mgodi, Nyaradzo, Karuna, Shelly, Edupuganti, Srilatha, Seaman, Michael S, Corey, Lawrence, Cohen, Myron S, Hural, John, McElrath, M Juliana, Mullins, James I, Montefiori, David, Moore, Penny L, Williamson, Carolyn, Morris, Lynn

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Enhancement of Neutralization Responses through Sequential Immunization of Stable Env Trimers Based on Consensus Sequences from Select Time Points by Mimicking Natural Infection von Wan, Mingming, Yang, Xiao, Sun, Jie, Giorgi, Elena E, Ding, Xue, Zhou, Yan, Zhang, Yong, Su, Weiheng, Jiang, Chunlai, Shan, Yaming, Gao, Feng

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Low-dose rectal inoculation of rhesus macaques by SIVsmE660 or SIVmac251 recapitulates human mucosal infection by HIV-1 von Keele, Brandon F, Li, Hui, Learn, Gerald H, Hraber, Peter, Giorgi, Elena E, Grayson, Truman, Sun, Chuanxi, Chen, Yalu, Yeh, Wendy W, Letvin, Norman L, Mascola, John R, Nabel, Gary J, Haynes, Barton F, Bhattacharya, Tanmoy, Perelson, Alan S, Korber, Bette T, Hahn, Beatrice H, Shaw, George M

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Trivalent mosaic or consensus HIV immunogens prime humoral and broader cellular immune responses in adults von Cohen, Kristen W, Fiore-Gartland, Andrew, Walsh, Stephen R, Yusim, Karina, Frahm, Nicole, Elizaga, Marnie L, Maenza, Janine, Scott, Hyman, Mayer, Kenneth H, Goepfert, Paul A, Edupuganti, Srilatha, Pantaleo, Giuseppe, Hutter, Julia, Morris, Daryl E, De Rosa, Stephen C, Geraghty, Daniel E, Robb, Merlin L, Michael, Nelson L, Fischer, Will, Giorgi, Elena E, Malhi, Harman, Pensiero, Michael N, Ferrari, Guido, Tomaras, Georgia D, Montefiori, David C, Gilbert, Peter B, McElrath, M Juliana, Haynes, Barton F, Korber, Bette T, Baden, Lindsey R

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Association between mitochondrial genetic variation and breast cancer risk: The Multiethnic Cohort von Li, Yuqing, Giorgi, Elena E, Beckman, Kenneth B, Caberto, Christian, Kazma, Remi, Lum-Jones, Annette, Haiman, Christopher A, Marchand, Loïc Le, Stram, Daniel O, Saxena, Richa, Cheng, Iona

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High Multiplicity Infection by HIV-1 in Men Who Have Sex with Men von Li, Hui, Bar, Katharine J, Wang, Shuyi, Decker, Julie M, Chen, Yalu, Sun, Chuanxi, Salazar-Gonzalez, Jesus F, Salazar, Maria G, Learn, Gerald H, Morgan, Charity J, Schumacher, Joseph E, Hraber, Peter, Giorgi, Elena E, Bhattacharya, Tanmoy, Korber, Bette T, Perelson, Alan S, Eron, Joseph J, Cohen, Myron S, Hicks, Charles B, Haynes, Barton F, Markowitz, Martin, Keele, Brandon F, Hahn, Beatrice H, Shaw, George M

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Estimating the Timing of Early Simian-Human Immunodeficiency Virus Infections: a Comparison between Poisson Fitter and BEAST von Giorgi, Elena E., Li, Hui, Bhattacharya, Tanmoy, Shaw, George M., Korber, Bette

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Mutations that confer resistance to broadly-neutralizing antibodies define HIV-1 variants of transmitting mothers from that of non-transmitting mothers von Kumar, Amit, Giorgi, Elena E., Tu, Joshua J., Martinez, David R., Eudailey, Joshua, Mengual, Michael, Honnayakanahalli Marichannegowda, Manukumar, Van Dyke, Russell, Gao, Feng, Permar, Sallie R.

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Infant transmitted/founder HIV-1 viruses from peripartum transmission are neutralization resistant to paired maternal plasma von Kumar, Amit, Smith, Claire E P, Giorgi, Elena E, Eudailey, Joshua, Martinez, David R, Yusim, Karina, Douglas, Ayooluwa O, Stamper, Lisa, McGuire, Erin, LaBranche, Celia C, Montefiori, David C, Fouda, Genevieve G, Gao, Feng, Permar, Sallie R

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Superinfection and cure of infected cells as mechanisms for hepatitis C virus adaptation and persistence von Ke, Ruian, Li, Hui, Wang, Shuyi, Ding, Wenge, Ribeiro, Ruy M., Giorgi, Elena E., Bhattacharya, Tanmoy, Barnard, Richard J. O., Hahn, Beatrice H., Shaw, George M., Perelson, Alan S.

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Role of donor genital tract HIV-1 diversity in the transmission bottleneck von Boeras, Debrah I, Hraber, Peter T, Hurlston, Mackenzie, Evans-Strickfaden, Tammy, Bhattacharya, Tanmoy, Giorgi, Elena E, Mulenga, Joseph, Karita, Etienne, Korber, Bette T, Allen, Susan, Hart, Clyde E, Derdeyn, Cynthia A, Hunter, Eric

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Estimating time since infection in early homogeneous HIV-1 samples using a poisson model von Giorgi, Elena E, Funkhouser, Bob, Athreya, Gayathri, Perelson, Alan S, Korber, Bette T, Bhattacharya, Tanmoy

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