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  1. 1.   Acute infectious mononucleosis generates persistent, functional EBNA-1 antibodies with high cross-reactivity to alpha-crystalline beta
  2. Ganta, Krishna Kumar; McManus, Margaret; Blanc, Ross; Wang, Qixin; Jung, Wonyeong; Brody, Robin; Carrington,Mary; Paris, Robert; Chandramouli, Sumana; McNamara, Ryan P; Luzuriaga, Katherine
  3. Cell Reports. 2025, May 13; 44(5): 115709.
  1. 2.   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. 3.   Widespread distribution of transcriptionally active, clonally expanded, HIV-1 proviruses despite suppressive antiretroviral therapy
  2. Imamichi, Hiromi; Natarajan,Venkatachala; Scrimieri,Francesca; Smith, Mindy; Badralmaa,Yunden; Bosche,Marjorie; Hensien, Jack M; Buerkert, Thomas; Sherman,Brad; Sherman, Brad T; Singh, Kanal; Lane, H Clifford
  3. The Journal of Clinical Investigation. 2025, Apr 22;
  1. 4.   Optimization of the PROTAC linker region of the proteasome substrate receptor hRpn13 rationalized structural modeling with molecular dynamics
  2. Lu,Xiuxiu; Sabbasani, Venkata R; Walters,Kylie; Swenson, Rolf E; Walters,Kylie
  3. The Journal of Biological Chemistry. 2025, Apr 18; 108520.
  1. 5.   ERK Allosteric Activation: The Importance of Two Ordered Phosphorylation Events
  2. Regev,Clil; Jang,Hyunbum; Nussinov,Ruth
  3. Journal of Molecular Biology. 2025, Apr 09; 169130.
  1. 6.   Structural basis for complement receptor engagement and virus neutralization through Epstein-Barr virus gp350
  2. Joyce, M Gordon; Bu, Wei; Chen, Wei-Hung; Gillespie, Rebecca A; Andrews, Sarah F; Wheatley, Adam K; Tsybovsky,Yaroslav; Jensen, Jaime L; Stephens,Tyler; Prabhakaran, Madhu; Fisher, Brian E; Narpala, Sandeep R; Bagchi, Meghna; McDermott, Adrian B; Nabel, Gary J; Kwong, Peter D; Mascola, John R; Cohen, Jeffrey I; Kanekiyo, Masaru
  3. Immunity. 2025, Feb 11; 58(2): 295-308.e5. .
  1. 7.   The differential interactomes of the KRAS splice variants identify BIRC6 as a ubiquitin ligase for KRAS4A
  2. Kochen Rossi, Juan; Nuevo-Tapioles, Cristina; O'Keefe, Rachel A; Hunkeler, Moritz; Schmoker, Anna M; Fissore-O'Leary, Mercedes; Su, Wenjuan; Ahearn, Ian M; Branco, Cristina; Cheong, Hakyung; Esposito,Dom; Clotea, Ioana; Ueberheide, Beatrix; Fischer, Eric S; Philips, Mark R
  3. Cell Reports. 2024, Dec 19; 44(1): 115087.
  1. 8.   Design, Synthesis and Biological Evaluation of 2-Phenyl Indole Analogues of OXi8006 as Colchicine Site Inhibitors of Tubulin Polymerization and Vascular Disrupting Agents
  2. Vairin, Rebecca; Tamminga, Caleb; Shi, Zhe; Borchardt, Christian; Jambulapati, Jayaram; Bai, Ruoli; Wanniarachchi, Hashini; Bueno, Lorena; Hamel,Ernest; Mason, Ralph P; Trawick, Mary Lynn; Pinney, Kevin G
  3. Bioorganic & Medicinal Chemistry. 2024, Nov 07; 118: 117981.
  1. 9.   Potent and broad HIV-1 neutralization in fusion peptide-primed SHIV-infected macaques
  2. Wang, Hua; Cheng, Cheng; Dal Santo, James L; Shen, Chen-Hsiang; Bylund, Tatsiana; Henry, Amy R; Howe, Colin A; Hwang, Juyun; Morano, Nicholas C; Morris, Daniel J; Pletnev, Sergei; Roark, Ryan S; Zhou, Tongqing; Hansen, Bryan T; Hoyt, Forrest H; Johnston, Timothy S; Wang, Shuyi; Zhang, Baoshan; Ambrozak, David R; Becker, Jordan E; Bender, Michael F; Changela, Anita; Chaudhary, Ridhi; Corcoran, Martin; Corrigan, Angela R; Foulds, Kathryn E; Guo, Yicheng; Lee, Myungjin; Li, Yingying; Lin, Bob C; Liu, Tracy; Louder, Mark K; Mandolesi, Marco; Mason, Rosemarie D; McKee, Krisha; Nair, Vinod; O'Dell, Sijy; Olia, Adam S; Ou, Li; Pegu, Amarendra; Raju, Nagarajan; Rawi, Reda; Roberts-Torres, Jesmine; Sarfo, Edward K; Sastry, Mallika; Schaub, Andrew J; Schmidt, Stephen D; Schramm, Chaim A; Schwartz, Cindi L; Smith, Sarah C; Stephens,Tyler; Stuckey, Jonathan; Teng, I-Ting; Todd, John-Paul; Tsybovsky,Yaroslav; Van Wazer, David J; Wang, Shuishu; Doria-Rose, Nicole A; Fischer, Elizabeth R; Georgiev, Ivelin S; Karlsson Hedestam, Gunilla B; Sheng, Zizhang; Woodward, Ruth A; Douek, Daniel C; Koup, Richard A; Pierson, Theodore C; Shapiro, Lawrence; Shaw, George M; Mascola, John R; Kwong, Peter D
  3. Cell. 2024, Oct 23;
  1. 10.   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. 11.   In some cases more complicated approaches to refinement of macromolecular structures are not necessary
  2. Dauter, Zbigniew; Wlodawer,Alexander
  3. IUCrJ. 2024, Jul 01; 11(Pt 4): 643-644.
  1. 12.   Evaluation of the Therapeutic Potential of Sulfonyl Urea Derivatives as Soluble Epoxide Hydrolase (sEH) Inhibitors
  2. Kundu, Biswajit; Dvorácskó, Szabolcs; Basu, Abhishek; Pommerolle, Lenny; Kim, Kyu Ah; Wood, Casey M; Gibbs, Eve; Behee, Madeline; Tarasova,Nadya; Cinar, Resat; Iyer, Malliga R
  3. Molecules (Basel, Switzerland). 2024, Jun 26; 29(13):
  1. 13.   Disruption of Ca2+/calmodulin:KSR1 interaction lowers ERK activation
  2. Thines, Louise; Jang,Hyunbum; Li, Zhigang; Sayedyahossein, Samar; Maloney, Ryan; Nussinov,Ruth; Sacks, David B
  3. Protein Science : a publication of the Protein Society. 2024, May; 33(5): e4982.
  1. 14.   P1' specificity of the S219V/R203G mutant tobacco etch virus protease
  2. Golda, Mária; Hoffka, Gyula; Cherry,Scott; Tropea, Joseph E; Lountos,George; Waugh, David S; Wlodawer,Alexander; Tozsér, József; Mótyán, János András
  3. Proteins. 2024, Apr 26;
  1. 15.   Attenuating ribosome load improves protein output from mRNA by limiting translation-dependent mRNA decay
  2. Bicknell, Alicia A; Reid, David W; Licata, Marissa C; Jones, Adriana K; Cheng, Yi Min; Li, Mengying; Hsiao, Chiaowen Joyce; Pepin, Christopher S; Metkar, Mihir; Levdansky,Yevgen; Fritz, Brian R; Andrianova, Elizaveta A; Jain, Ruchi; Valkov,Eugene; Köhrer, Caroline; Moore, Melissa J
  3. Cell Reports. 2024, Apr 15; 43(4): 114098.
  1. 16.   HIV-1 Transcription Inhibition Using Small RNA-Binding Molecules
  2. Khatkar, Pooja; Mensah, Gifty; Ning, Shangbo; Cowen, Maria; Kim, Yuriy; Williams, Anastasia; Abulwerdi, Fardokht A; Zhao, Yunjie; Zeng, Chen; Le Grice, Stuart F J; Kashanchi, Fatah
  3. Pharmaceuticals (Basel, Switzerland). 2023, Dec 25; 17(1):
  1. 17.   Integration of Computational Docking into Anti-Cancer Drug Response Prediction Models
  2. Narykov, Oleksandr; Zhu, Yitan; Brettin, Thomas; Evrard,Yvonne; Partin, Alexander; Shukla, Maulik; Xia, Fangfang; Clyde, Austin; Vasanthakumari, Priyanka; Doroshow, James H; Stevens, Rick L
  3. Cancers. 2023, Dec 21; 16(1):
  1. 18.   Can incorporating genotyping data into efficacy estimators improve efficiency of early phase malaria vaccine trials?
  2. Potter, Gail E; Callier,Viviane; Shrestha, Biraj; Joshi, Sudhaunshu; Dwivedi, Ankit; Silva, Joana C; Laurens, Matthew B; Follmann, Dean A; Deye, Gregory A
  3. Malaria Journal. 2023, Dec 19; 22(1): 383.
  1. 19.   SERPINB3-MYC axis induces the basal-like/squamous subtype and enhances disease progression in pancreatic cancer
  2. Ohara, Yuuki; Tang, Wei; Liu, Huaitian; Yang, Shouhui; Dorsey, Tiffany H; Cawley, Helen; Moreno, Paloma; Chari,Raj; Guest,Mary; Azizian, Azadeh; Gaedcke, Jochen; Ghadimi, Michael; Hanna, Nader; Ambs, Stefan; Hussain, S Perwez
  3. Cell Reports. 2023, Nov 18; 42(12): 113434.
  1. 20.   Abundant binary promoter switches in lineage-determining transcription factors indicate a digital component of cell fate determination
  2. Li,Hongchuan; Rahman, Md Ahasanur; Ruesch, Michael; Eisele, Caprice D; Anderson,Erik; Wright,Paul; Cao, Jennie; Ratnayake, Shashikala; Chen, Qingrong; Yan, Chunhua; Meerzaman, Daoud; Abraham, Roshini S; Freud, Aharon G; Anderson,Steve
  3. Cell Reports. 2023, Nov 16; 42(11): 113454.
  1. 21.   Protocol for the saturation and multiplexing of genetic variants using CRISPR-Cas9
  2. Sahu,Sounak; Sullivan,Teresa; Southon,Eileen; Caylor,Dylan; Geh, Josephine; Sharan,Shyam
  3. STAR Protocols. 2023, Nov 08; 4(4): 102702.
  1. 22.   Detection of the DNA binding of transcription factors in situ at the single-cell resolution in cultured cells by proximity ligation assay
  2. Ram,Babul; Dai,Chengkai
  3. STAR Protocols. 2023, Nov 01; 4(4): 102692.
  1. 23.   AP-1/c-Fos supports SIV and HIV-1 latency in CD4 T cells infected in vivo
  2. Cobos Jiménez, Viviana; Geretz, Aviva; Tokarev, Andrey; Ehrenberg, Philip K; Deletsu, Selase; Machmach, Kawthar; Mudvari, Prakriti; Howard, J Natalie; Zelkoski, Amanda; Paquin-Proulx, Dominic; Del Prete,Greg; Subra, Caroline; Boritz, Eli A; Bosque, Alberto; Thomas, Rasmi; Bolton, Diane L
  3. iScience. 2023, Oct 20; 26(10): 108015.
  1. 24.   UGDH promotes tumor-initiating cells and a fibroinflammatory tumor microenvironment in ovarian cancer
  2. Harrington, Brittney S; Kamdar, Rahul; Ning, Franklin; Korrapati, Soumya; Caminear, Michael W; Hernandez, Lidia F; Butcher,Donna; Edmondson,Elijah; Traficante, Nadia; Hendley, Joy; Gough, Madeline; Rogers, Rebecca; Lourie, Rohan; Shetty,Jyoti; Tran,Bao; Abdelmaksoud, Abdalla; Nag, Madhu Lal; Mazan-Mamczarz, Krystyna; House, Carrie D; Hooper, John D; Annunziata, Christina M; Elloumi,Fathi
  3. Journal of Experimental & Clinical Cancer Research : CR. 2023, Oct 19; 42(1): 270.
  1. 25.   Recent Advances in the Development of Non-Invasive Imaging Probes for Cancer Immunotherapy
  2. Kazim,Muhammad; Yoo,Euna
  3. Angewandte Chemie (International ed. in English). 2023, Oct 16; e202310694.
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