Ribosomal frameshifting in the CCR5 mRNA is regulated by miRNAs and the NMD pathway von Belew, Ashton Trey, Meskauskas, Arturas, Musalgaonkar, Sharmishtha, Advani, Vivek M., Sulima, Sergey O., Kasprzak, Wojciech K., Shapiro, Bruce A., Dinman, Jonathan D.

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In vitro assembly of cubic RNA-based scaffolds designed in silico von Jaeger, Luc, Voss, Neil, Bindewald, Eckart, Yaghoubian, Alan J, Shapiro, Bruce A, Afonin, Kirill A, Jacovetty, Erica

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Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line von Vogel, Christine, Penalva, Luiz O, de Sousa Abreu, Raquel, Ko, Daijin, Le, Shu-Yun, Shapiro, Bruce A, Burns, Suzanne C, Sandhu, Devraj, Boutz, Daniel R, Marcotte, Edward M

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Multistrand Structure Prediction of Nucleic Acid Assemblies and Design of RNA Switches von Bindewald, Eckart, Afonin, Kirill A, Viard, Mathias, Zakrevsky, Paul, Kim, Taejin, Shapiro, Bruce A

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Design and self-assembly of siRNA-functionalized RNA nanoparticles for use in automated nanomedicine von Afonin, Kirill A, Grabow, Wade W, Walker, Faye M, Bindewald, Eckart, Dobrovolskaia, Marina A, Shapiro, Bruce A, Jaeger, Luc

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Structural Differences between Pri-miRNA Paralogs Promote Alternative Drosha Cleavage and Expand Target Repertoires von Bofill-De Ros, Xavier, Kasprzak, Wojciech K., Bhandari, Yuba, Fan, Lixin, Cavanaugh, Quinn, Jiang, Minjie, Dai, Lisheng, Yang, Acong, Shao, Tie-Juan, Shapiro, Bruce A., Wang, Yun-Xing, Gu, Shuo

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Multistrand RNA Secondary Structure Prediction and Nanostructure Design Including Pseudoknots von Bindewald, Eckart, Afonin, Kirill, Jaeger, Luc, Shapiro, Bruce A

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Virtual Screening of Hepatitis B Virus Pre-Genomic RNA as a Novel Therapeutic Target von Olenginski, Lukasz T, Kasprzak, Wojciech K, Attionu, Solomon K, Shapiro, Bruce A, Dayie, Theodore K

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Bridging the gap in RNA structure prediction von Shapiro, Bruce A, Yingling, Yaroslava G, Kasprzak, Wojciech, Bindewald, Eckart

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Dynamic bulge nucleotides in the KSHV PAN ENE triple helix provide a unique binding platform for small molecule ligands von Swain, Monalisa, Ageeli, Abeer A, Kasprzak, Wojciech K, Li, Mi, Miller, Jennifer T, Sztuba-Solinska, Joanna, Schneekloth, John S, Koirala, Deepak, Piccirili, Joseph, Fraboni, Americo J, Murelli, Ryan P, Wlodawer, Alexander, Shapiro, Bruce A, Baird, Nathan, Le Grice, Stuart F J

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Activation of different split functionalities on re-association of RNA–DNA hybrids von Afonin, Kirill A., Viard, Mathias, Martins, Angelica N., Lockett, Stephen J., Maciag, Anna E., Freed, Eric O., Heldman, Eliahu, Jaeger, Luc, Blumenthal, Robert, Shapiro, Bruce A.

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Computational Design of an RNA Hexagonal Nanoring and an RNA Nanotube von Yingling, Yaroslava G, Shapiro, Bruce A

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A Ribosome-Binding, 3′ Translational Enhancer Has a T-Shaped Structure and Engages in a Long-Distance RNA-RNA Interaction von FENG GAO, KASPRZAK, Wojciech, STUPINA, Vera A, SHAPIRO, Bruce A, SIMON, Anne E

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RNAJunction: a database of RNA junctions and kissing loops for three-dimensional structural analysis and nanodesign von Bindewald, Eckart, Hayes, Robert, Yingling, Yaroslava G., Kasprzak, Wojciech, Shapiro, Bruce A.

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Characterization of Cationic Bolaamphiphile Vesicles for siRNA Delivery into Tumors and Brain von Kim, Taejin, Viard, Mathias, Afonin, Kirill A., Gupta, Kshitij, Popov, Mary, Salotti, Jacqueline, Johnson, Peter F., Linder, Charles, Heldman, Eliahu, Shapiro, Bruce A.

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Structural complexity of Dengue virus untranslated regions: cis-acting RNA motifs and pseudoknot interactions modulating functionality of the viral genome von Sztuba-Solinska, Joanna, Teramoto, Tadahisa, Rausch, Jason W, Shapiro, Bruce A, Padmanabhan, Radhakrishnan, Le Grice, Stuart F J

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Design and biological activity of novel stealth polymeric lipid nanoparticles for enhanced delivery of hydrophobic photodynamic therapy drugs von Viard, Mathias, Reichard, Henry, Shapiro, Bruce A., Durrani, Farukh A, Marko, Aimee J, Watson, R Michelle, Pandey, Ravindra K., Puri, Anu

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RNA⁻Protein Interactions Prevent Long RNA Duplex Formation: Implications for the Design of RNA-Based Therapeutics von Bindewald, Eckart, Dai, Lisheng, Kasprzak, Wojciech K, Kim, Taejin, Gu, Shuo, Shapiro, Bruce A

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Co-transcriptional production of RNA-DNA hybrids for simultaneous release of multiple split functionalities von Afonin, Kirill A, Desai, Ravi, Viard, Mathias, Kireeva, Maria L, Bindewald, Eckart, Case, Christopher L, Maciag, Anna E, Kasprzak, Wojciech K, Kim, Taejin, Sappe, Alison, Stepler, Marissa, Kewalramani, Vineet N, Kashlev, Mikhail, Blumenthal, Robert, Shapiro, Bruce A

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Solution structure of the cap-independent translational enhancer and ribosome-binding element in the 3' UTR of turnip crinkle virus von Zuo, Xiaobing, Wang, Jinbu, Yu, Ping, Eyler, Dan, Xu, Huan, Starich, Mary R, Tiede, David M, Simon, Anne E, Kasprzak, Wojciech, Schwieters, Charles D, Shapiro, Bruce A, Wang, Yun-Xing

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