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  1. 1.   Machine learning-augmented molecular dynamics simulations (MD) reveal insights into the disconnect between affinity and activation of ZTP riboswitch ligands
  2. Fullenkamp, Christopher; Mehdi, Shams; Jones, Christopher; Tenney, Logan; Pichling, Patricio; Prestwood, Peri R; Ferré-D'Amaré, Adrian R; Tiwary, Pratyush; Schneekloth,John
  3. Angewandte Chemie (International ed. in English). 2025, May 01; e202505971.
  1. 2.   Repression of ZNFX1 by LncRNA ZFAS1 mediates tobacco-induced pulmonary carcinogenesis
  2. Xi, Sichuan; Shan, Jigui; Wu, Xinwei; Wang, Haitao; Zhang, Mary R; Oyetunji, Shakirat; Xu, Hong; Xiao, Zuoxiang; Tolunay, Tuana; Carr, Shamus R; Hoang, Chuong D; Schrump, David S
  3. Cellular & Molecular Biology Letters. 2025, Apr 10; 30(1): 44.
  1. 3.   Inhibition of Ribosome Biogenesis in vivo Causes p53-Dependent Death and p53-Independent Dysfunction
  2. Cho, Charles J; Nguyen, Thanh; Rougeau, Amala K; Huang, Yang-Zhe; To, Sarah; Lin, Xiaobo; Thalalla Gamage,Supuni; Meier,Jordan; Mills, Jason C
  3. Cellular and Molecular Gastroenterology and Hepatology. 2025, Mar 11; 101496.
  1. 4.   Deletion of a single CTCF motif at the boundary of a chromatin domain with three FGF genes disrupts gene expression and embryonic development
  2. Chakraborty, Shreeta; Wenzlitschke, Nina; Anderson,Matthew; Eraso, Ariel; Baudic, Manon; Thompson, Joyce J; Evans, Alicia A; Shatford-Adams, Lilly M; Chari,Raj; Awasthi,Roackie; Dale, Ryan K; Lewandoski,Mark; Petros, Timothy J; Rocha, Pedro P
  3. Developmental Cell. 2025, Feb 24;
  1. 5.   Epigenetic associations with kidney disease in individuals of African ancestry with APOL1 high-risk genotypes and Human Immunodeficiency Virus
  2. Hung, Rachel K Y; Costeira, Ricardo; Chen, Junyu; Schlosser, Pascal; Grundner-Culemann, Franziska; Booth, John W; Sharpe, Claire C; Bramham, Kate; Sun, Yan V; Marconi, Vincent C; Teumer, Alexander; Winkler,Cheryl; Post, Frank A; Bell, Jordana T
  3. Nephrology, Dialysis, Transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association. 2024, Oct 24;
  1. 6.   African ancestry-derived APOL1 risk genotypes show proximal epigenetic associations
  2. Breeze, Charles E; Lin, Bridget M; Winkler,Cheryl; Franceschini, Nora
  3. BMC Genomics. 2024, May 08; 25(1): 452.
  1. 7.   The common variable immunodeficiency IgM repertoire narrowly recognizes erythrocyte and platelet glycans
  2. Le Coz, Carole; Trofa, Melissa; Butler, Dorothy L; Yoon, Samuel; Tian, Tian; Reid, Whitney; Cruz Cabrera, Emylette; Knox, Ainsley V C; Khanna, Caroline; Sullivan, Kathleen E; Heimall, Jennifer; Takach, Patricia; Fadugba, Olajumoke O; Lawrence, Monica; Jyonouchi, Soma; Hakonarson, Hakon; Wells, Andrew D; Handler, Steven; Zur, Karen B; Pillai, Vinodh; Gildersleeve,Jeffrey; Romberg, Neil
  3. The Journal of Allergy and Clinical Immunology. 2024, Apr 29;
  1. 8.   Protective human monoclonal antibodies target conserved sites of vulnerability on the underside of influenza virus neuraminidase
  2. Lederhofer, Julia; Tsybovsky,Yaroslav; Nguyen, Lam; Raab, Julie E; Creanga, Adrian; Stephens,Tyler; Gillespie, Rebecca A; Syeda, Hubza Z; Fisher, Brian E; Skertic, Michelle; Yap, Christina; Schaub, Andrew J; Rawi, Reda; Kwong, Peter D; Graham, Barney S; McDermott, Adrian B; Andrews, Sarah F; King, Neil P; Kanekiyo, Masaru
  3. Immunity. 2024, Mar 12; 57(3): 574-586.e7.
  1. 9.   Specialized replication of heterochromatin domains ensures self-templated chromatin assembly and epigenetic inheritance
  2. Nathanailidou, Patroula; Dhakshnamoorthy, Jothy; Xiao, Hua; Zofall, Martin; Holla, Sahana; O'Neill,Maura; Andresson,Thorkell; Wheeler, David; Grewal, Shiv I S
  3. Proceedings of the National Academy of Sciences of the United States of America. 2024, Feb 06; 121(6): e2315596121.
  1. 10.   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. 11.   Natural history of Ebola virus disease in rhesus monkeys shows viral variant emergence dynamics and tissue-specific host responses
  2. Normandin, Erica; Triana, Sergio; Raju, Siddharth S; Lan, Tammy C T; Lagerborg, Kim; Rudy, Melissa; Adams, Gordon C; DeRuff, Katherine C; Logue, James; Liu, David; Strebinger, Daniel; Rao, Arya; Messer, Katelyn S; Sacks, Molly; Adams, Ricky D; Janosko, Krisztina; Kotliar, Dylan; Shah, Rickey; Crozier,Ian; Rinn, John L; Melé, Marta; Honko, Anna N; Zhang, Feng; Babadi, Mehrtash; Luban, Jeremy; Bennett, Richard S; Shalek, Alex K; Barkas, Nikolaos; Lin, Aaron E; Hensley, Lisa E; Sabeti, Pardis C; Siddle, Katherine J
  3. Cell Genomics. 2023, Dec 13; 3(12): 100440.
  1. 12.   Phenotypic signatures of circulating neoantigen-reactive CD8+ T cells in patients with metastatic cancers
  2. Yossef, Rami; Krishna, Sri; Sindiri, Sivasish; Lowery, Frank J; Copeland, Amy R; Gartner, Jared J; Parkhurst, Maria R; Parikh, Neilesh B; Hitscherich, Kyle J; Levi, Shoshana T; Chatani, Praveen D; Zacharakis, Nikolaos; Levin, Noam; Vale, Nolan R; Nah, Shirley K; Dinerman, Aaron; Hill, Victoria K; Ray, Satyajit; Bera, Alakesh; Levy, Lior; Jia, Li; Kelly,Michael; Goff, Stephanie L; Robbins, Paul F; Rosenberg, Steven A
  3. Cancer Cell. 2023, Dec 11; 41
  1. 13.   Effect of Neutralizing Monoclonal Antibody Treatment on Early Trajectories of Virologic and Immunologic Biomarkers in Patients Hospitalized With COVID-19
  2. Jensen, Tomas O; Grandits, Greg A; Jain, Mamta K; Murray, Thomas A; Grund, Birgit; Shaw-Saliba, Kathryn; Matthay, Michael A; Abassi, Mahsa; Ardelt, Magdalena; Baker, Jason V; Chen, Peter; Dewar, Robin L; Goodman, Anna L; Hatlen, Timothy J; Highbarger, Helene C; Holodniy, Mark; Lallemand, Perrine; Laverdure,Sylvain; Leshnower, Bradley G; Looney, David; Moschopoulos, Charalampos D; Mugerwa, Henry; Murray, Daniel D; Mylonakis, Eleftherios; Nagy-Agren, Stephanie; Rehman, M Tauseef; Rupert, Adam; Stevens, Randy A; Turville, Stuart; Weintrob, Amy; Wick, Katherine; Lundgren, Jens; Ko, Emily R
  3. The Journal of Infectious Diseases. 2023, Nov 09;
  1. 14.   Artificial Intelligence and Infectious Disease Imaging
  2. Chu, Winston T; Reza, Syed M S; Anibal, James T; Landa, Adam; Crozier,Ian; Bagci, Ulas; Wood, Bradford J; Solomon, Jeffrey
  3. The Journal of Infectious Diseases. 2023, Oct 03; 228(Supplement_4): S322-S336.
  1. 15.   Development of a bicistronic anti-CD19/CD20 CAR construct including abrogation of unexpected nucleic acid sequence deletions
  2. Lam, Norris; Finney, Richard; Yang, Shicheng; Choi, Stephanie; Wu,Xiaolin; Cutmore, Lauren; Andrade, Jorge; Huang, Lei; Amatya, Christina; Cam, Margaret; Kochenderfer, James N
  3. Molecular Therapy Oncolytics. 2023, Sep 21; 30: 132-149.
  1. 16.   Early Intervention in STAT3 Dominant-Negative Disease
  2. An, Zixiao Annie; Williams, Kelli W; Urban,Amanda; Ali, Sania; Roy, Susan; Lafeer, Christine; Heimall, Jennifer; Dimitriades, Victoria R; Davis, Joie; Kong, Heidi H; Cowen, Edward W; Holland, Steven M; Freeman, Alexandra F
  3. The Journal of Allergy and Clinical Immunology. In Practice. 2023, Sep 06;
  1. 17.   Identification of neoepitope reactive T-cell receptors guided by HLA-A*03:01 and HLA-A*11:01 immunopeptidomics
  2. Ade, Catherine M; Sporn, Matthew J; Das,Sudipto; Yu, Zhiya; Hanada, Ken-Ichi; Qi, Yue A; Maity, Tapan; Zhang, Xu; Guha, Udayan; Andresson,Thorkell; Yang, James C
  3. Journal for Immunotherapy of Cancer. 2023, Sep; 11(9):
  1. 18.   In utero exposure to diethylstilbestrol and blood DNA methylation in adult women: Results from a meta-analysis of two cohort studies
  2. Bodelon, Clara; Gierach, Gretchen L; Hatch, Elizabeth E; Riseberg, Emily; Hutchinson,Amy; Yeager,Meredith; Sandler, Dale P; Taylor, Jack A; Hoover, Robert N; Xu, Zongli; Titus, Linda; Palmer, Julie R; Troisi, Rebecca
  3. Environmental Research. 2023, Aug 15; 231(Pt. 1): 115990.
  1. 19.   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. 20.   CD22 CAR T-cell associated hematologic toxicities, endothelial activation and relationship to neurotoxicity
  2. Jess, Jennifer; Yates, Bonnie; Dulau-Florea, Alina; Parker, Kevin; Inglefield,Jon; Lichtenstein, Dan; Schischlik, Fiorella; Ongkeko, Martin; Wang,Yanyu; Shahani, Shilpa; Cullinane, Ann; Smith, Hannah; Kane, Eli; Little, Lauren; Chen, Dong; Fry, Terry J; Shalabi, Haneen; Wang, Hao-Wei; Satpathy, Ansuman; Lozier, Jay; Shah, Nirali N
  3. Journal for Immunotherapy of Cancer. 2023, Jun; 11(6):
  1. 21.   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. 22.   DNA methylation age in paired tumor and adjacent normal breast tissue in Chinese women with breast cancer
  2. Koka, Hela; Bodelon, Clara; Horvath, Steve; Lee, Priscilla Ming Yi; Wang,Difei; Song,Lei; Zhang, Tongwu; Hurson, Amber N; Guida, Jennifer Lyn; Zhu, Bin; Bailey-Whyte, Maeve; Wang, Feng; Wu, Cherry; Tsang, Koon Ho; Tsoi, Yee-Kei; Chan, W C; Law, Sze Hong; Hung, Ray Ka Wai; Tse, Gary M; Yuen, Karen Ka-Wan; Karlins, Eric; Jones,Kristine; Vogt,Aurelie; Zhu, Bin; Hutchinson,Amy; Hicks,Belynda; Garcia-Closas, Montserrat; Chanock, Stephen; Barnholtz-Sloan, Jill; Tse, Lap Ah; Yang, Xiaohong R
  3. Clinical Epigenetics. 2023, Mar 30; 15(1): 55.
  1. 23.   Aging and obesity prime the methylome and transcriptome of adipose stem cells for disease and dysfunction
  2. Xie, Shaojun; Choudhari, Sulbha; Wu, Chia-Lung; Abramson, Karen; Corcoran, David; Gregory, Simon G; Thimmapuram, Jyothi; Guilak, Farshid; Little, Dianne
  3. FASEB Journal : official publication of the Federation of American Societies for Experimental Biology. 2023, Mar; 37(3): e22785.
  1. 24.   Preclinical optimization of a GPC2-targeting CAR T-cell therapy for neuroblastoma
  2. Sun, Ming; Cao, Yingying; Okada, Reona; Reyes-González, Jeyshka M; Stack, Hannah G; Qin, Haiying; Li, Nan; Seibert,Charlie; Kelly, Michael C; Ruppin, Eytan; Ho, Mitchell; Thiele, Carol J; Nguyen, Rosa
  3. Journal for Immunotherapy of Cancer. 2023, Jan; 11(1):
  1. 25.   Quality Assessment of Proteins and RNA Following Storage in Archival Formalin-Fixed Paraffin-Embedded Human Breast Cancer Tissue Microarray Sections
  2. Kim, Kyungeun; Ylaya, Kris; Perry,Candice; Lee, Mi-Yeon; Kim, Jeong Won; Chung, Joon-Yong; Hewitt, Stephen M
  3. Biopreservation and Biobanking. 2022, Oct 19;
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