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  1. 1.   Co-incubation of Short Amphiphilic Peptides with Dicer Substrate RNAs Results in ß-Sheet Fibrils for Enhanced Gene Silencing in Cancer Cells
  2. Gupta, Kshitij; Parlea, Lorena; Puri,Anu; Smith, Katelyn; Puri,Anu; Bergman, Joseph T; Kim, Taejin; Shapiro,Bruce
  3. RNA Nanomed. 2024, Dec; 1(1): 61-78.
  1. 2.   Genomic profiles and clinical presentation of chordoma
  2. Koka, Hela; Zhou,Weiyin; McMaster, Mary L; Bai, Jiwei; Luo,Wen; Klein, Alyssa; Zhang, Tongwu; Hua,Xing; Li, Xin; Wang,Difei; Xiong, Yujia; Jones,Kristine; Vogt,Aurelie; Hicks,Belynda; Parry, Dilys; Goldstein, Alisa M; Yang, Xiaohong R
  3. Acta Neuropathologica Communications. 2024, Aug 12; 12(1): 129.
  1. 3.   Molecular Signature and Immune Landscape of HCV-Associated Hepatocellular Carcinoma (HCC): Differences and Similarities with HBV-HCC
  2. De Battista, Davide; Zamboni, Fausto; Gerstein, Hannah; Sato, Shinya; Markowitz,Tovah; Lack,Justin; Engle, Ronald E; Farci, Patrizia
  3. Journal of hepatocellular carcinoma. 2021, Nov 21; 8: 1399-1413.
  1. 4.   Severe COVID-19 Is Characterized by an Impaired Type I Interferon Response and Elevated Levels of Arginase Producing Granulocytic Myeloid Derived Suppressor Cells
  2. Dean, Matthew J; Ochoa, Juan B; Sanchez-Pino, Maria Dulfary; Zabaleta, Jovanny; Garai, Jone; Del Valle, Luis; Wyczechowska, Dorota; Baiamonte, Lyndsey Buckner; Philbrook, Phaethon; Majumder, Rinku; Vander Heide, Richard S; Dunkenberger, Logan; Thylur, Ramesh Puttalingaiah; Nossaman, Bobby; Roberts, W Mark; Chapple, Andrew G; Wu, Jiande; Hicks, Chindo; Collins,Jack; Luke,Brian; Johnson,Randy; Koul, Hari K; Rees, Chris A; Morris, Claudia R; Garcia-Diaz, Julia; Ochoa, Augusto C
  3. Frontiers in immunology. 2021, Jul 14; 12: 695972.
  1. 5.   Amyloid Oligomers: A Joint Experimental/Computational Perspective on Alzheimer's Disease, Parkinson's Disease, Type II Diabetes, and Amyotrophic Lateral Sclerosis
  2. Nguyen, Phuong H.; Ramamoorthy, Ayyalusamy; Sahoo, Bikash R.; Zheng, Jie; Faller, Peter; Straub, John E.; Dominguez, Laura; Shea, Joan-Emma; Dokholyan, Nikolay; De Simone, Alfonso; Ma, Buyong; Nussinov,Ruth; Najafi, Saeed; Ngo, Son Tung; Loquet, Antoine; Chiricotto, Mara; Ganguly, Pritam; McCarty, James; Li, Mai Suan; Hall, Carol; Wang, Yiming; Miller, Yifat; Melchionna, Simone; Habenstein, Birgit; Timr, Stepan; Chen, Jiaxing; Hnath, Brianna; Strodel, Birgit; Kayed, Rakez; Lesne, Sylvain; Wei, Guanghong; Sterpone, Fabio; Doig, Andrew J.; Derreumaux, Philippe
  3. Chemical Reviews. 2021, Feb 24; 121(4): 2545-2647.
  1. 6.   Inhibition of Nonfunctional Ras
  2. Nussinov,Ruth; Jang, Hyunbum; Gursoy, Attila; Keskin, Ozlem; Gaponenko, Vadim
  3. Cell Chemical Biology. 2021, Feb 18; 28(2): 121-133.
  1. 7.   The genomic and epigenomic evolutionary history of papillary renal cell carcinomas
  2. Zhu, Bin; Poeta, Maria Luana; Costantini, Manuela; Zhang, Tongwu; Shi, Jianxin; Sentinelli, Steno; Zhao, Wei; Pompeo, Vincenzo; Cardelli, Maurizio; Alexandrov, Boian S; Otlu, Burcak; Hua, Xing; Jones,Kristine; Brodie,Seth; Dabrowska, Malgorzata Ewa; Toro, Jorge R; Yeager,Meredith; Wang,Mingyi; Hicks,Belynda; Alexandrov, Ludmil B; Brown, Kevin M; Wedge, David C; Chanock, Stephen; Fazio, Vito Michele; Gallucci, Michele; Landi, Maria Teresa
  3. Nature communications. 2020, Jun 18; 11(1): 3096.
  1. 8.   Genetic and epigenetic intratumor heterogeneity impacts prognosis of lung adenocarcinoma
  2. Hua, Xing; Zhao, Wei; Pesatori, Angela C.; Consonni, Dario; Caporaso, Neil E.; Zhang, Tongwu; Zhu, Bin; Wang,Mingyi; Jones,Kristine; Hicks,Belynda; Song,Lei; Sampson, Joshua; Wedge, David C.; Shi, Jianxin; Landi, Maria Teresa
  3. NATURE COMMUNICATIONS. 2020, MAY 18; 11(1):
  1. 9.   Autoinhibition can identify rare driver mutations and advise pharmacology
  2. Nussinov,Ruth; Tsai,Chung-Jung; Jang,Hyunbum
  3. FASEB journal : official publication of the Federation of American Societies for Experimental Biology. 2020, Jan; 34(1): 16-29.
  1. 10.   Origin of rebound virus in chronically SIV-infected Rhesus monkeys following treatment discontinuation
  2. Liu, Po-Ting; Keele,Brandon; Abbink, Peter; Mercado, Noe B; Liu, Jinyan; Bondzie, Esther A; Chandrashekar, Abishek; Borducchi, Erica N; Hesselgesser, Joseph; Mish, Michael; Chin, Gregory; Bekerman, Elena; Geleziunas, Romas; Barouch, Dan H
  3. Nature communications. 2020, 10 27; 11(1): 5412.
  1. 11.   High-resolution structural genomics reveals new therapeutic vulnerabilities in glioblastoma
  2. Johnston, Michael J.; Nikolic, Ana; Ninkovic, Nicoletta; Guilhamon, Paul; Cavalli, Florence M. G.; Seaman,Steven; Zemp, Franz J.; Lee, John; Abdelkareem, Aly; Ellestad, Katrina; Murison, Alex; Kushida, Michelle M.; Coutinho, Fiona J.; Ma, Yussanne; Mungall, Andrew J.; Moore, Richard; Marra, Marco A.; Taylor, Michael D.; Dirks, Peter B.; Pugh, Trevor J.; Morrissy, Sorana; St Croix,Brad; Mahoney, Douglas J.; Lupien, Mathieu; Gallo, Marco
  3. GENOME RESEARCH. 2019, AUG; 29(8): 1211-1222.
  1. 12.   Protein ensembles link genotype to phenotype
  2. Nussinov,Ruth; Tsai,Chung-Jung; Jang,Hyunbum
  3. PLoS computational biology. 2019, Jun; 15(6):
  1. 13.   Computational Structural Biology: Successes, Future Directions, and Challenges
  2. Nussinov, Ruth; Tsai, Chung-Jung; Shehu, Amarda; Jang, Hyunbum
  3. Molecules (Basel, Switzerland). 2019, Feb 1; 24(3):
  1. 14.   Structure and energetic basis of overrepresented ? light chain in systemic light chain amyloidosis patients
  2. Zhao, Jun; Zhang, Baohong; Zhu, Jianwei; Nussinov, Ruth; Ma, Buyong
  3. Biochimica et Biophysica Acta. 2018, Jun; 1864(6 Pt B): 2294-2303.
  1. 15.   C/EBP-d positively regulates MDSC expansion and endothelial VEGFR2 expression in tumor development
  2. Min, Yongfen; Li, Jingdong; Qu, Peng; Lin, Charles
  3. Oncotarget. 2017, Aug 1; 8(31): 50582-50593.
  1. 16.   Conformational Dynamics and Allostery in E2:E3 Interactions Drive Ubiquitination: gp78 and Ube2g2
  2. Chakrabarti, Kalyan S; Li, Jess; Das, Ranabir; Byrd, Robert
  3. Structure (London, England : 1993). 2017, May 2; 25(5): 794-805.
  1. 17.   Disordered Proteins and Network Disorder in Network Descriptions of Protein Structure, Dynamics and Function: Hypotheses and a Comprehensive Review
  2. Csermely, P.; Sandhu, K. S.; Hazai, E.; Hoksza, Z.; Kiss, H. J. M.; Miozzo, F.; Veres, D. V.; Piazza, F.; Nussinov, R.
  3. Current Protein & Peptide Science. 2012, Feb; 13(1): 19-33.
  1. 18.   Gene-specific transcription activation via long-range allosteric shape-shifting
  2. Tsai, C. J.; Nussinov, R.
  3. Biochemical Journal. 2011, Oct; 439: 15-25.
  1. 19.   Dynamic Allostery: Linkers Are Not Merely Flexible
  2. Ma, B. Y.; Tsai, C. J.; Haliloglu, T.; Nussinov, R.
  3. Structure. 2011, Jul; 19(7): 907-917.
  1. 20.   Allostery and population shift in drug discovery
  2. Kar, G.; Keskin, O.; Gursoy, A.; Nussinov, R.
  3. Current Opinion in Pharmacology. 2010, Dec; 10(6): 715-722.
  1. 21.   Induced fit, conformational selection and independent dynamic segments: an extended view of binding events
  2. Csermely, P.; Palotai, R.; Nussinov, R.
  3. Trends in Biochemical Sciences. 2010, Oct; 35(10): 539-546.
  1. 22.   Enzyme dynamics point to stepwise conformational selection in catalysis
  2. Ma, B. Y.; Nussinov, R.
  3. Current Opinion in Chemical Biology. 2010, Oct; 14(5): 652-659.
  1. 23.   Conformational ensembles, signal transduction and residue hot spots: Application to drug discovery
  2. Ozbabacan, S. E. A.; Gursoy, A.; Keskin, O.; Nussinov, R.
  3. Current Opinion in Drug Discovery & Development. 2010, Sep; 13(5): 527-537.
  1. 24.   Zinc ions promote Alzheimer A beta aggregation via population shift of polymorphic states
  2. Miller, Y.; Ma, B. Y.; Nussinov, R.
  3. Proceedings of the National Academy of Sciences of the United States of America. 2010, May 25; 107(21): 9490-9495.
  1. 25.   Mechanisms of transcription factor selectivity
  2. Pan, Y. P.; Tsai, C. J.; Ma, B. Y.; Nussinov, R.
  3. Trends in Genetics. 2010, Feb; 26(2): 75-83.
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