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  1. 1.   Multistrand RNA Secondary Structure Prediction and Nanostructure Design Including Pseudoknots
  2. Bindewald, E.; Afonin, K.; Jaeger, L.; Shapiro, B. A.
  3. Acs Nano. 2011, Dec; 5(12): 9542-9551.
  1. 2.   CyloFold: secondary structure prediction including pseudoknots
  2. Bindewald, E.; Kluth, T.; Shapiro, B. A.
  3. Nucleic Acids Research. 2010, Jul; 38: W368-W372.
  1. 3.   Solution structure of the cap-independent translational enhancer and ribosome-binding element in the 3 ' UTR of turnip crinkle virus
  2. Zuo, X. B.; Wang, J. B.; Yu, P.; Eyler, D.; Xu, H.; Starich, M. R.; Tiede, D. M.; Simon, A. E.; Kasprzak, W.; Schwieters, C. D.; Shapiro, B. A.; Wang, Y. X.
  3. Proceedings of the National Academy of Sciences of the United States of America. 2010, Jan 26; 107(4): 1385-1390.
  1. 4.   Bridging the gap in RNA structure prediction
  2. Shapiro, B. A.; Yingling, Y. G.; Kasprzak, W.; Bindewald, E.
  3. Current Opinion in Structural Biology. 2007, Apr; 17(2): 157-165.
  1. 5.   The impact of dyskeratosis congenita mutations on the structure and dynamics of the human telomerase RNA pseudoknot domain
  2. Yingling, Y. G.; Shapiro, B. A.
  3. Journal of Biomolecular Structure & Dynamics. 2007, Feb; 24(4): 303-319.
  1. 6.   Graphical exploratory data analysis of RNA secondary structure dynamics predicted by the massively parallel genetic algorithm
  2. Shapiro, B. A.; Kasprzak, W.; Grunewald, C.; Aman, J.
  3. Journal of Molecular Graphics & Modelling. 2006, Dec; 25(4): 514-531.
  1. 7.   The prediction of the wild-type telomerase RNA pseudoknot structure and the pivotal role of the bulge in its formation
  2. Yingling, Y. G.; Shapiro, B. A.
  3. Journal of Molecular Graphics & Modelling. 2006, Oct; 25(2): 261-274.
  1. 8.   RNA secondary structure prediction from sequence alignments using a network of k-nearest neighbor classifiers
  2. Bindewald, E.; Shapiro, B. A.
  3. Rna-a Publication of the Rna Society. 2006 12(3): 342-352.
  1. 9.   Dynamic behavior of the telomerase RNA hairpin structure and its relationship to dyskeratosis congenita
  2. Yingling, Y. G.; Shapiro, B. A.
  3. Journal of Molecular Biology. 2005, APR 22; 348(1): 27-42.
  1. 10.   Transfer RNA modification status influences retroviral ribosomal frameshifting
  2. Carlson, B. A.; Kwon, S. Y.; Chamorro, M.; Oroszlan, S.; Hatfield, D. L.; Lee, B. J.
  3. Virology. 1999 255(1): 2-8.
  1. 11.   Phylogenetic evidence for the improved RNA higher-order structure in internal ribosome entry sequences of HCV and pestiviruses
  2. Le, S. Y.; Liu, W. M.; Maizel, J. V.
  3. Virus Genes. 1998 17(3): 279-295.
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