Our Science – Shapiro Website

Bruce A. Shapiro, Ph.D.

Selected Publications

1) Zuo X, Wang J, Yu P, Eyler D, Xu H, Starich MR, Tiede DM, Simon AE, Kasprzak W, Schwieters CD, Shapiro BA, Wang Y.
Solution structure of the cap-independent translational enhancer and ribosome-binding element in the 3' UTR of turnip crinkle virus.
Proc Natl Acad Sci U S A. Epub ahead of print, 2010. [Journal]

2) Wang J, Zuo X, Yu P, Xu H, Starich MR, Tiede DM, Shapiro BA, Schwieters CD, Wang Y.
A method for helical RNA global structure determination in solution using small-angle x-ray scattering and NMR measurements.
J. Mol. Biol. 393(3): 717-34, 2009. [Journal]

3) Shiao YH, Lupascu ST, Gu YD, Kasprzak W, Hwang CJ, Fields JR, Leighty RM, Quiñones O, Shapiro BA, Alvord WG, Anderson LM.
An Intergenic Non-Coding rRNA Correlated with Expression of the rRNA and Frequency of an rRNA Single Nucleotide Polymorphism in Lung Cancer Cells.
PLoS ONE. 4: e7505, 2009. [Journal]

4) Paliy M, Melnik R, Shapiro BA.
Molecular dynamics study of the RNA ring nanostructure: a phenomenon of self-stabilization.
Phys Biol. 6(4): 46003, 2009. [Journal]

5) Paliy M, Melnik R, Shapiro BA.
A mesoscopic model for molecular dynamics studies of RNA nanostructures (8th Annual International Conference on Computational Systems Bioinformatics).
Volume . August 10-12, 2009; Stanford University, Palo Alto, CA. In Press. [Meeting Proceeding]

6) Spirollari J, Wang J, Zhang K, Bellofatto V, Park Y, Shapiro BA.
Predicting consensus structures for RNA alignments via pseudo-energy minimization.
Bioinform Biol Insights. 3: 51-69, 2009. [Journal]

7) Severcan I, Geary C, Jaeger L, Bindewald E, Kasprzak W, Shapiro B. Alterovitz G, Ramoni M, Benson R, eds.
Computational and Experimental RNA Nanoparticle Design. In: Automation in Genomics and Proteomics: An Engineering Case-Based Approach. Volume .
Hoboken: Wiley Publishing; 2009. p. 193-220 [Book Chapter]

8) de Sousa Abreu R, Sanchez-Diaz PC, Vogel C, Burns SC, Ko D, Burton TL, Vo DT, Chennasamudaram S, Le SY, Shapiro BA, Penalva LO.
Genomic analyses of musashi1 downstream targets show a strong association with cancer-related processes.
J. Biol. Chem. 284: 12125-35, 2009. [Journal]

9) Santhanam AN, Bindewald E, Rajasekhar VK, Larsson O, Sonenberg N, Colburn NH, Shapiro BA.
Role of 3'UTRs in the translation of mRNAs regulated by oncogenic eIF4E--a computational inference.
PLoS ONE. 4(3): e4868, 2009. [Journal]

10) Linnstaedt SD, Kasprzak WK, Shapiro BA, Casey JL.
The fraction of RNA that folds into the correct branched secondary structure determines hepatitis delta virus type 3 RNA editing levels.
RNA. 15: 1177-87, 2009. [Journal]

Click Here to View Expanded Bibliography.

This page was last updated on 1/26/2010.