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  1. 1.   A robust fluorogenic substrate for chikungunya virus protease (nsP2) activity
  2. Makhaik, Sparsh; Rut, Wioletta; Choudhary, Shruti; Upadhyay, Tulsi; Hao, Chenzhou; Westberg, Michael; Bobst, Cedric; Yoo,Euna; Fejzo, Jasna; Lin, Michael Z; Bogyo, Matthew; Thompson, Paul; Drag, Marcin; Hardy, Jeanne A
  3. Protein Science : a publication of the Protein Society. 2025, Mar; 34(3): e70069.
  1. 2.   Structure-based design of glycoprotein subunit vaccines for mumps
  2. Loomis, Rebecca J; Lai, Yen-Ting; Sowers, Sun B; Fisher, Brian; Derrien-Colemyn, Alexandrine; Ambrozak, David R; Tsybovsky,Yaroslav; Crooke, Stephen N; Latner, Donald R; Kong, Wing-Pui; Ruckwardt, Tracy J; Plotkin, Stanley A; Kwong, Peter D; Mascola, John R; Graham, Barney S; Hickman, Carole J; Stewart-Jones, Guillaume B E
  3. Proceedings of the National Academy of Sciences of the United States of America. 2024, Nov 19; 121(47): e2404053121.
  1. 3.   Multi-objective latent space optimization of generative molecular design models
  2. Abeer, A N M Nafiz; Urban, Nathan M; Weil,Michael; Alexander, Francis J; Yoon, Byung-Jun
  3. Patterns (New York, N.Y.). 2024, Oct 11; 5(10): 101042.
  1. 4.   Design of soluble HIV-1 envelope trimers free of covalent gp120-gp41 bonds with prevalent native-like conformation
  2. Zhang, Peng; Gorman, Jason; Tsybovsky,Yaroslav; Lu, Maolin; Liu, Qingbo; Gopan, Vinay; Singh, Mamta; Lin, Yin; Miao, Huiyi; Seo, Yuna; Kwon, Alice; Olia, Adam S; Chuang, Gwo-Yu; Geng, Hui; Lai, Yen-Ting; Zhou, Tongqing; Mascola, John R; Mothes, Walther; Kwong, Peter D; Lusso, Paolo
  3. Cell Reports. 2024, Jul 18; 43(8): 114518.
  1. 5.   Re-Engineering Therapeutic Anti-Aß Monoclonal Antibody to Target Amyloid Light Chain
  2. Bai, Jingyi; Li, Xi; Zhao, Jun; Zong, Huifang; Yuan, Yuan; Wang, Lei; Zhang, Xiaoshuai; Ke, Yong; Han, Lei; Xu, Jianrong; Ma, Buyong; Zhang, Baohong; Zhu, Jianwei
  3. International Journal of Molecular Sciences. 2024, Jan 27; 25(3):
  1. 6.   Inhibition of Plasmodium falciparum plasmepsins by drugs targeting HIV-1 protease: A way forward for antimalarial drug discovery
  2. Mishra, Vandana; Deshmukh, Anuradha; Rathore, Ishan; Chakraborty, Satadru; Patankar, Swati; Gustchina,Alla; Wlodawer,Alexander; Yada, Rickey Y; Bhaumik, Prasenjit
  3. Current Research in Structural Biology. 2024, Jan 17; 7: 100128.
  1. 7.   Antigen spacing on protein nanoparticles influences antibody responses to vaccination
  2. Ellis, Daniel; Dosey, Annie; Boyoglu-Barnum, Seyhan; Park, Young-Jun; Gillespie, Rebecca; Syeda, Hubza; Hutchinson, Geoffrey B; Tsybovsky,Yaroslav; Murphy, Michael; Pettie, Deleah; Matheson, Nick; Chan, Sidney; Ueda, George; Fallas, Jorge A; Carter, Lauren; Graham, Barney S; Veesler, David; Kanekiyo, Masaru; King, Neil P
  3. Cell Reports. 2023, Dec 13; 42(12): 113552.
  1. 8.   HIV-1 neutralizing antibodies elicited in humans by a prefusion-stabilized envelope trimer form a reproducible class targeting fusion peptide
  2. Wang, Shuishu; Matassoli, Flavio; Zhang, Baoshan; Liu, Tracy; Shen, Chen-Hsiang; Bylund, Tatsiana; Johnston, Timothy; Henry, Amy R; Teng, I-Ting; Tripathi, Prabhanshu; Becker, Jordan E; Changela, Anita; Chaudhary, Ridhi; Cheng, Cheng; Gaudinski, Martin; Gorman, Jason; Harris, Darcy R; Lee, Myungjin; Morano, Nicholas C; Novik, Laura; O'Dell, Sijy; Olia, Adam S; Parchment, Danealle K; Rawi, Reda; Roberts-Torres, Jesmine; Stephens,Tyler; Tsybovsky,Yaroslav; Wang, Danyi; Van Wazer, David J; Zhou, Tongqing; Doria-Rose, Nicole A; Koup, Richard A; Shapiro, Lawrence; Douek, Daniel C; McDermott, Adrian B; Kwong, Peter D
  3. Cell Reports. 2023, Jul 10; 42(7): 112755.
  1. 9.   A mutagenesis study of autoantigen optimization for potential T1D vaccine design
  2. Song, Yi; Bell,David; Ahmed, Rizwan; Chan, Kevin C; Lee, Sangyun; Hamad, Abdel Rahim A; Zhou, Ruhong
  3. Proceedings of the National Academy of Sciences of the United States of America. 2023, Apr 18; 120(16): e2214430120.
  1. 10.   Structure-based discovery of potent WD repeat domain 5 inhibitors that demonstrate efficacy and safety in preclinical animal models
  2. Teuscher, Kevin B; Chowdhury, Somenath; Meyers, Kenneth M; Tian, Jianhua; Sai, Jiqing; Van Meveren, Mayme; South, Taylor M; Sensintaffar, John L; Rietz, Tyson A; Goswami, Soumita; Wang, Jing; Grieb, Brian C; Lorey, Shelly L; Howard, Gregory C; Liu, Qi; Moore,Bill; Stott,Gordon; Tansey, William P; Lee, Taekyu; Fesik, Stephen W
  3. Proceedings of the National Academy of Sciences of the United States of America. 2023, Jan 03; 120(1): e2211297120.
  1. 11.   Vaccine-elicited murine antibody WS6 neutralizes diverse beta-coronaviruses by recognizing a helical stem supersite of vulnerability
  2. Shi, Wei; Wang, Lingshu; Zhou, Tongqing; Sastry, Mallika; Yang, Eun Sung; Zhang, Yi; Chen, Man; Chen, Xuejun; Choe, Misook; Creanga, Adrian; Leung, Kwan; Olia, Adam S; Pegu, Amarendra; Rawi, Reda; Schön, Arne; Shen, Chen-Hsiang; Stancofski, Erik-Stephane D; Talana, Chloe Adrienna; Teng, I-Ting; Wang, Shuishu; Corbett, Kizzmekia S; Tsybovsky,Yaroslav; Mascola, John R; Kwong, Peter D
  3. Structure (London, England : 1993). 2022, Jul 12; 30(9): 1233–1244.
  1. 12.   Exploration of Ultralarge Compound Collections for Drug Discovery
  2. Warr, Wendy A; Nicklaus,Marc; Nicolaou, Christos A; Rarey, Matthias
  3. Journal of Chemical Information and Modeling. 2022, Apr 14;
  1. 13.   Environmental determinants of Kaposi's sarcoma-associated herpesvirus (KSHV) transmission in rural Uganda (ENDKU study): Contributions to research on KSHV infection and reactivation in African children; A longitudinal cohort study
  2. Sabourin, Katherine R; Nalwoga, Angela; Whitby,Denise; Newton, Robert; Rochford, Rosemary
  3. Cancer Epidemiology. 2022, Apr 02; 78: 102154.
  1. 14.   SARS-CoV-2 ferritin nanoparticle vaccines elicit broad SARS coronavirus immunogenicity
  2. Joyce, M. Gordon; Chen, Wei-Hung; Sankhala, Rajeshwer S.; Hajduczki, Agnes; Thomas, Paul; Choe, Misook; Martinez, Elizabeth J.; Chang, William C.; Peterson, Caroline E.; Morrison, Elaine B.; Smith,Clayton; Chen, Rita E.; Ahmed, Aslaa; Wieczorek, Lindsay; Anderson, Alexander; Case, James Brett; Li, Yifan; Oertel, Therese; Rosado, Lorean; Ganesh, Akshaya; Whalen, Connor; Carmen, Joshua M.; Mendez-Rivera, Letzibeth; Karch, Christopher P.; Gohain, Neelakshi; Villar, Zuzana; McCurdy, David; Beck, Zoltan; Kim, Jiae; Shrivastava, Shikha; Jobe, Ousman; Dussupt, Vincent; Molnar, Sebastian; Tran, Ursula; Kannadka, Chandrika B.; Soman, Sandrine; Kuklis, Caitlin; Zemil, Michelle; Khanh, Htet; Wu,Weimin; Cole, Matthew A.; Duso, Debra K.; Kummer, Larry W.; Lang, Tricia J.; Muncil, Shania E.; Currier, Jeffrey R.; Krebs, Shelly J.; Polonis, Victoria R.; Rajan, Saravanan; McTamney, Patrick M.; Esser, Mark T.; Reiley, William W.; Rolland, Morgane; de Val, Natalia; Diamond, Michael S.; Gromowski, Gregory D.; Matyas, Gary R.; Rao, Mangala; Michael, Nelson L.; Modjarrad, Kayvon
  3. CELL REPORTS. 2021, DEC 21; 37(12):
  1. 15.   Chimeric Fusion (F) and Attachment (G) Glycoprotein Antigen Delivery by mRNA as a Candidate Nipah Vaccine
  2. Loomis, Rebecca J.; DiPiazza, Anthony T.; Falcone, Samantha; Ruckwardt, Tracy J.; Morabito, Kaitlyn M.; Abiona, Olubukola M.; Chang, Lauren A.; Caringal, Ria T.; Presnyak, Vladimir; Narayanan, Elisabeth; Tsybovsky,Yaroslav; Nair, Deepika; Hutchinson, Geoffrey B.; Stewart-Jones, Guillaume B. E.; Kueltzo, Lisa A.; Himansu, Sunny; Mascola, John R.; Carfi, Andrea; Graham, Barney S.
  3. Frontiers in Immunology. 2021, Dec 8; 12
  1. 16.   Chemoenzymatic Synthesis of 9NHAc-GD2 Antigen to Overcome the Hydrolytic Instability of O-Acetylated-GD2 for Anticancer Conjugate Vaccine Development
  2. Wu, Xuanjun; Ye, Jinfeng; DeLaitsch, Andrew T.; Rashidijahanabad, Zahra; Lang, Shuyao; Kakeshpour, Tayeb; Zhao, Yuetao; Ramadan, Sherif; Saavedra, Paulo Vilar; Yuzbasiyan-Gurkan, Vilma; Kavunja, Herbert; Cao, Hongzhi; Gildersleeve,Jeffrey; Huang, Xuefei
  3. Angewandte Chemie (International ed. in English). 2021, Nov 2; 60(45): 24179-24188.
  1. 17.   Engineering well-expressed, V2-immunofocusing HIV-1 envelope glycoprotein membrane trimers for use in heterologous prime-boost vaccine regimens
  2. Crooks, Emma T.; Almanza, Francisco; D'Addabbo, Alessio; Duggan, Erika; Zhang, Jinsong; Wagh, Kshitij; Mou, Huihui; Allen, Joel D.; Thomas, Alyssa; Osawa, Keiko; Korber, Bette T.; Tsybovsky,Yaroslav; Cale, Evan; Nolan, John; Crispin, Max; Verkoczy, Laurent K.; Binley, James M.
  3. PLoS Pathogens. 2021, Oct; 17(10):
  1. 18.   Application of CHyMErA Cas9-Cas12a combinatorial genome-editing platform for genetic interaction mapping and gene fragment deletion screening
  2. Aregger,Michael; Xing, Kun; Gonatopoulos Pournatzis,Thomas
  3. Nature Protocols . 2021, Sep 10; 16(10): 4722-4765.
  1. 19.   Coumarin luciferins and mutant luciferases for robust multi-component bioluminescence imaging
  2. Yao, Zi; Caldwell,Donald; Love, Anna C.; Kolbaba-Kartchner, Bethany; Mills, Jeremy H.; Schnermann,Martin; Prescher, Jennifer A.
  3. CHEMICAL SCIENCE. 2021, Aug 2;
  1. 20.   Discovery and Optimization of 2H-1 lambda(2)-Pyridin-2-one Inhibitors of Mutant Isocitrate Dehydrogenase 1 for the Treatment of Cancer
  2. Rohde, Jason M.; Karavadhi, Surendra; Pragani, Rajan; Liu, Li; Fang, Yuhong; Zhang, Weihe; McIver, Andrew; Zheng, Hongchao; Liu, Qingyang; Davis, Mindy; Urban, Daniel J.; Lee, Tobie D.; Cheff, Dorian M.; Hollingshead,Melinda; Henderson, Mark J.; Martinez, Natalia J.; Brimacombe, Kyle R.; Yasgar, Adam; Zhao, Wei; Klumpp-Thomas, Carleen; Michael, Sam; Covey, Joseph; Moore,Bill; Stott, Gordon M.; Li, Zhuyin; Simeonov, Anton; Jadhav, Ajit; Frye, Stephen; Hall, Matthew D.; Shen, Min; Wang, Xiaodong; Patnaik, Samarjit; Boxer, Matthew B.
  3. Journal of Medicinal Chemistry. 2021, Apr 22; 64(8): 4913-4946.
  1. 21.   Frequency of Pathogenic Germline Variants in Cancer-Susceptibility Genes in the Childhood Cancer Survivor Study
  2. Kim, Jung; Gianferante, Matthew; Karyadi, Danielle M.; Hartley, Stephen W.; Frone, Megan N.; Luo,Wen; Robison, Leslie L.; Armstrong, Gregory T.; Bhatia, Smita; Dean,Michael; Yeager,Meredith; Zhu,Bin; Song, Lei; Sampson, Joshua N.; Yasui, Yutaka; Leisenring, Wendy M.; Brodie,Seth; de Andrade, Kelvin C.; Fortes, Fernanda P.; Goldstein, Alisa M.; Khincha, Payal P.; Machiela, Mitchell J.; McMaster, Mary L.; Nickerson, Michael L.; Oba, Leatrisse; Pemov, Alexander; Pinheiro, Maisa; Rotunno, Melissa; Santiago, Karina; Wegman-Ostrosky, Talia; Diver, W. Ryan; Teras, Lauren; Freedman, Neal D.; Hicks,Belynda; Wang,Mingyi; Jones,Kristine; Hutchinson,Amy; Dagnall,Casey; Savage, Sharon A.; Tucker, Margaret A.; Chanock, Stephen J.; Morton, Lindsay M.; Stewart, Douglas R.; Mirabello, Lisa
  3. JNCI cancer spectrum. 2021, Apr; 5(2):
  1. 22.   Celebrating the 75th birthday of Professor Wladek Minor, one of the most accomplished Polish-American structural biologists
  2. Jaskolski, Mariusz; Wlodawer,Alexander; Dauter, Zbigniew; Shabalin, Ivan; Chruszcz, Maksymilian
  3. Acta Biochimica Polonica. 2021, Jan 21; 68(1): 1-4.
  1. 23.   Automated Design by Structure-Based Stabilization and Consensus Repair to Achieve Prefusion-Closed Envelope Trimers in a Wide Variety of HIV Strains
  2. Rawi, Reda; Rutten, Lucy; Lai, Yen-Ting; Olia, Adam S; Blokland, Sven; Juraszek, Jarek; Shen, Chen-Hsiang; Tsybovsky,Yaroslav; Verardi, Raffaello; Yang, Yongping; Zhang, Baoshan; Zhou, Tongqing; Chuang, Gwo-Yu; Kwong, Peter D; Langedijk, Johannes P M
  3. Cell reports. 2020, Nov 24; 33(8): 108432.
  1. 24.   SAVI, in silico generation of billions of easily synthesizable compounds through expert-system type rules
  2. Patel,Hitesh; Ihlenfeldt, Wolf-Dietrich; Judson, Philip N; Moroz, Yurii S; Pevzner, Yuri; Peach,Megan; Delannee,Victorien; Tarasova,Nadya; Nicklaus,Marc
  3. Scientific data. 2020, NOV 11; 7(1): 384.
  1. 25.   Structure-Based Design with Tag-Based Purification and In-Process Biotinylation Enable Streamlined Development of SARS-CoV-2 Spike Molecular Probes
  2. Zhou, Tongqing; Teng, I-Ting; Olia, Adam S; Cerutti, Gabriele; Gorman, Jason; Nazzari, Alexandra; Shi, Wei; Tsybovsky,Yaroslav; Wang, Lingshu; Wang, Shuishu; Zhang, Baoshan; Zhang, Yi; Katsamba, Phinikoula S; Petrova, Yuliya; Banach, Bailey B; Fahad, Ahmed S; Liu, Lihong; Lopez Acevedo, Sheila N; Madan, Bharat; Oliveira de Souza, Matheus; Pan, Xiaoli; Wang, Pengfei; Wolfe, Jacy R; Yin, Michael; Ho, David D; Phung, Emily; DiPiazza, Anthony; Chang, Lauren A; Abiona, Olubukola M; Corbett, Kizzmekia S; DeKosky, Brandon J; Graham, Barney S; Mascola, John R; Misasi, John; Ruckwardt, Tracy; Sullivan, Nancy J; Shapiro, Lawrence; Kwong, Peter D
  3. Cell reports. 2020, Oct 27; 33(4): 108322.
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