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  1. 1.   HIVGenoPipe: a nextflow pipeline for the detection of HIV-1 drug resistance using a real-time sample-specific reference sequence
  2. Dotrang,Thoai; Sherman,Brad; Dai,Lisheng; Khan,Muhammad; Highbarger,Helene; Bruchey,Whitney; Laverdure,Sylvain; Baseler,Michael; Imamichi,Tomozumi; Dewar,Robin; Chang,Weizhong
  3. BMC Bioinformatics. 2025, Jul 07; 26(1): 168.
  1. 2.   Polymerase theta inhibitors combinations with approved and investigational agents in patient-derived tumor multi-cell type (mct) spheroids
  2. Teicher, Beverly A; Dexheimer,Thomas; Chen,Li; Silvers, Thomas; Jones,Eric; Coussens,Nathan; Eder, J Paul; Doroshow, James H
  3. Experimental and Molecular Pathology. 2025, Jun 27; 143: 104978.
  1. 3.   Identification of a Novel Intracellular Function of the Secreted Ribonuclease RNASE1 in Inhibiting Gene Expression
  2. Singh, Ragini; Archibald, Ahlina; Li, Xiao Ling; Kumar, Ravi; Das,Shaoli; Pehrsson,Erica; Zhao,Patrick; Wen,Xinyu; Chari,Rajagopal; Grammatikakis, Ioannis; Lal, Ashish
  3. Molecular and Cellular Biology. 2025, Jun 17; 1-12.
  1. 4.   CRISPR screens and quantitative proteomics reveal remodeling of the aryl hydrocarbon receptor-driven proteome through PARP7 activity
  2. Gorelik, Andrii; Paulo, Joao A; Schroeter, Christina B; Lad, Melanie; Shurr, Abigail; Mastrokalou, Chara; Siddiqi, Samrah; Suyari, Osamu; Brognard,John; Walter, David; Matthews, Jason; Palmer, Timothy M; Gygi, Steven P; Ahel, Ivan
  3. Proceedings of the National Academy of Sciences of the United States of America. 2025, Jun 17; 122(24): e2424985122.
  1. 5.   Serological Surveillance of Betacoronaviruses in Bat Guano Collectors: Pre-COVID-19 Pandemic and Post-SARS-CoV-2 Emergence
  2. Ninwattana, Sasiprapa; Sterling, Spencer L; Rattanatumhi, Khwankamon; Thippamom, Nattakarn; Hirunpatrawong, Piyapha; Sangsub, Pakamas; Cheun-Arom, Thaniwan; Esposito,Dominic; Tan, Chee Wah; Yap, Wee Chee; Zhu, Feng; Wang, Lin-Fa; Laing, Eric D; Wacharapluesadee, Supaporn; Putcharoen, Opass
  3. Viruses. 2025, Jun 10; 17(6): 837.
  1. 6.   Biophysical and structural analysis of KRAS switch-II pocket inhibitors reveals allele-specific binding constraints
  2. Alexander,Patrick; Chan,Albert; Rabara,Dana; Swain,Monalisa; Larsen,Erik; Dyba,Marcin; Chertov,Oleg; Ashraf, Mariam; Champagne,Alysia; Lin, Ken; Maciag,Anna; Gillette,William; Nissley,Dwight; McCormick, Frank; Simanshu,Dhirendra; Stephen,Andrew
  3. The Journal of Biological Chemistry. 2025, Jun 03; 110331.
  1. 7.   Futility Monitoring in Clinical Trials
  2. Ortega-Villa, Ana M; Grieco, Megan C; Rubenstein,Kevin; Wang,Jing; Proschan, Michael A
  3. Statistics in Medicine. 2025, Jun; 44(13-14): e70157.
  1. 8.   Association between prediagnostic serum metabolites and pancreatic ductal adenocarcinoma risk in two prospective cohorts
  2. Zhang, Ting; Moore, Steven C; Fu, Sheng; Wang,Xiaoyu; Albanes, Demetrius; Weinstein, Stephanie J; Yu, Kai; Stolzenberg-Solomon, Rachael Z
  3. International Journal of Cancer. 2025, May 22;
  1. 9.   Changes in Generations of PAMAM Dendrimers and Compositions of Nucleic Acid Nanoparticles Govern Delivery and Immune Recognition
  2. Avila, Yelixza I; Rebolledo, Laura P; Leal Santos, Nathalia; Rawlins, Brandon; Radwan, Yasmine; Andrade-Muñoz, Melanie; Skelly, Elizabeth; Chandler, Morgan R; Andrade, Luciana N S; Kim, Tae Jin; Dobrovolskaia,Marina; Afonin, Kirill A
  3. ACS Biomaterials Science & Engineering. 2025, May 20;
  1. 10.   Clinicopathologic Features, Management, and Outcomes Of Pediatric CRTC1::TRIM11 and MED15::ATF1 Tumors With Spitzoid Morphology: A Case Series
  2. Sargen, Michael R; Fitzhugh, Madeline H; Ko, Jennifer S; Close, Allison G; Horton, Sara C; Malik, Faizan; Furtado, Larissa V; Bahrami, Armita; Seynnaeve, Brittani K N; Pappo, Alberto S; Liu, Vincent; Cheung, Kevin; Pack, Svetlana D; Xi, Liqiang; Raffeld, Mark; Lee, Ina; Gagan, Jeffrey; Aldape, Kenneth; Barr, Frederic G; Hewitt, Stephen M; Ferrone, Christina K; Hayden, Anna; Hatton, Jessica N; Goldstein, Alisa M; Pfeiffer, Ruth M; Widemann, Brigitte; Malone, Mary Frances Wedekind; Gross, Andrea M; Kaplan, Rosandra; Yohe,Marielle; Berrebi, Kristen G
  3. Pediatric Blood & Cancer. 2025, May 19; e31814.
  1. 11.   Activity and structure of human (d)CTP deaminase CDADC1
  2. Slyvka, Anton; Rathore, Ishan; Yang, Renbin; Gewartowska, Olga; Kanai, Tapan; Lountos,George; Skowronek, Krzysztof; Czarnocki-Cieciura, Mariusz; Wlodawer,Alexander; Bochtler, Matthias
  3. Proceedings of the National Academy of Sciences of the United States of America. 2025, May 13; 122(19): e2424245122.
  1. 12.   Kaposi Sarcoma-Associated Herpesvirus Risk and Disease in Kidney Donors and Transplant Recipients with HIV in the United States
  2. Nambiar, Puja; Liang, Tao; Labo,Maria Nazzarena; Hand, Jonathan; Blumberg, Emily A; Rana, Meenakshi M; Florman, Sander; Haydel, Brandy; Morris, Michele I; Schaenman, Joanna; Rodrigues, Moreno M S; Werbel, William A; Bowring, Mary G; Friedman-Moraco, Rachel J; Stock, Peter; Stosor, Valentina; Mehta, Shikha; Gilbert, Alexander J; Elias, Nahel; Mehta, Sapna A; Small, Catherine B; Haidar, Ghady; Malinis, Maricar; Pereira, Marcus R; Aslam, Saima; Wojciechowski, David; La Hoz, Ricardo; Santos, Carlos A Q; Apewokin, Senu; Castillo-Lugo, Jose A; Ranganna, Karthik; Morsheimer, Megan; Massie, Allan; Segev, Dorry L; Miley,Wendell; Marshall,Vickie; Whitby,Denise; Tobian, Aaron A A; Durand, Christine M
  3. Clinical Infectious Diseases : an official publication of the Infectious Diseases Society of America. 2025, May 05;
  1. 13.   IFN-?/IL-2 Double-Color FluoroSpot Assay for Monitoring Human Primary T Cell Activation: Validation, Inter-Laboratory Comparison, and Recommendations for Clinical Studies
  2. Mauthe, Alexandra; Cedrone,Edward; Villar-Hernández, Raquel; Rusch, Elisa; Springer, Marco; Schuster, Martin; Preyer, Rosemarie; Dobrovolskaia,Marina; Gutekunst, Matthias
  3. The AAPS Journal. 2025, Apr 25; 27(4): 81.
  1. 14.   Protein Phosphatase 1 Regulatory Subunit PNUTS Prevents CENP-A Mislocalization and Chromosomal Instability
  2. Balachandra, Vinutha; Thomas, Makenzie; Shrestha, Roshan L; Sethi, Subhash Chandra; Chari,Rajagopal; Lin, Shinjen; Chih-Chien Cheng, Ken; Karpova, Tatiana S; Caplen, Natasha J; Basrai, Munira A
  3. Molecular and Cellular Biology. 2025, Apr 24; 1-13.
  1. 15.   Highly immunogenic DNA/LION nanocarrier vaccine potently activates lymph nodes inducing long-lasting immunity in macaques
  2. Moussa,Maha; Moussa,Maha; Rosati,Margherita; Devasundaram, Santhi; Sengupta, Soumya; Goldfarbmuren,Katherine; Burns,Robert; Bear,Jenifer; Stellas, Dimitris; Urban,Elizabeth; Deleage,Claire; Khandhar, Amit P; Erasmus, Jesse; Berglund, Peter; Reed, Steven G; Pavlakis,George; Felber,Barbara
  3. iScience. 2025, Apr 18; 28(4): 112232.
  1. 16.   Developmental onset of planarian whole-body regeneration depends on axis reset
  2. Booth, Clare L T; Stevens, Brian C; Stubbert, Clover A; Kallgren,Neil; Deihl,Ennis; Davies,Erin
  3. Current Biology : CB. 2025, Apr 11;
  1. 17.   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. 18.   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. 19.   Combinatorial screen with apoptosis pathway targeted agents alrizomadlin, pelcitoclax, and dasminapant in multi-cell type tumor spheroids
  2. Coussens,Nathan; Dexheimer,Thomas; Silvers,Thomas; Sanchez,Phillip; Chen,Li; Hollingshead, Melinda G; Takebe, Naoko; Doroshow, James H; Teicher, Beverly A
  3. SLAS Discovery : advancing life sciences R & D. 2025, Apr 08; 100230.
  1. 20.   HTLV-1 p13 Protein Hijacks Macrophage Polarization and Promotes T-Cell Recruitment
  2. Moles, Ramona; Omsland, Maria; Pise-Masison, Cynthia A; Subleski,Jeffrey; McVicar,Daniel; Sarkis, Sarkis; Gutowska, Anna; Schifanella, Luca; Doster, Melvin; Washington-Parks, Robyn; Ciminale, Vincenzo; Franchini, Genoveffa
  3. Viruses. 2025, Mar 26; 17(4): 471.
  1. 21.   Donor telomeres and their magnitude of shortening post-allogeneic haematopoietic cell transplant impact survival for patients with early-stage leukaemia or myelodysplastic syndrome
  2. Gadalla, Shahinaz M; Katki, Hormuzd A; Lai, Tsung-Po; Auer, Paul L; Dagnall,Casey; Bupp, Caitrin; Hutchinson, Amy A; Anderson, James J; Mendez, Kyra J W; Spellman, Stephen R; Stewart, Valerie; Savage, Sharon A; Lee, Stephanie J; Levine, John E; Saber, Wael; Aviv, Abraham
  3. EBioMedicine. 2025, Mar 08; 114: 105641.
  1. 22.   Divergent populations of HIV-infected naïve and memory CD4+ T-cell clones in children on antiretroviral therapy
  2. Katusiime, Mary Grace; Neer,Victoria; Guo, Shuang; Patro,Sean; Wang,Wenjie; Luke,Brian; Capoferri,Adam; Wu,Xiaolin; Horner, Anna M; Rausch,Jason; Chahroudi, Ann; Mavigner, Maud; Kearney,Mary
  3. The Journal of Clinical Investigation. 2025, Mar 06;
  1. 23.   Data imbalance in drug response prediction: multi-objective optimization approach in deep learning setting
  2. Narykov, Oleksandr; Zhu, Yitan; Brettin, Thomas; Evrard,Yvonne; Partin, Alexander; Xia, Fangfang; Shukla, Maulik; Vasanthakumari, Priyanka; Doroshow, James H; Stevens, Rick L
  3. Briefings in Bioinformatics. 2025, Mar 04; 26(2):
  1. 24.   Noncanonical circRNA biogenesis driven by alpha and gamma herpesviruses
  2. Dremel, Sarah E; Koparde,Vishal; Arbuckle, Jesse H; Hogan, Chad H; Kristie, Thomas M; Krug, Laurie T; Conrad, Nicholas K; Ziegelbauer, Joseph M
  3. The EMBO Journal. 2025, Mar 03;
  1. 25.   Combinatorial screen of targeted agents with the PI3K inhibitors inavolisib, alpelisib, duvelisib, and copanlisib in multi-cell type tumor spheroids
  2. Dexheimer,Tom; Davoudi,Zahra; Coussens,Nathan; Silvers,Thomas; Morris, Joel; Takebe, Naoko; Said, Rabih; Moscow, Jeffrey A; Doroshow, James H; Teicher, Beverly A
  3. SLAS Discovery : advancing life sciences R & D. 2025, Feb 23; 100222.
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