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Our Science – Shapiro Website

Bruce A. Shapiro, Ph.D.

Selected Publications

1)  Afonin KA, Desai R, Viard M, Kireeva ML, Bindewald E, Case CL, Maciag AE, Kasprzak WK, Kim T, Sappe A, Stepler M, Kewalramani VN, Kashlev M, Blumenthal R, Shapiro BA.
Co-transcriptional production of RNA-DNA hybrids for simultaneous release of multiple split functionalities.
Nucleic Acids Res. 42: 2085-97, 2014.
[Journal]
2)  Afonin KA, Kasprzak W, Bindewald E, Puppala PS, Diehl AR, Hall KT, Kim TJ, Zimmermann MT, Jernigan RL, Jaeger L, Shapiro BA.
Computational and experimental characterization of RNA cubic nanoscaffolds.
Methods. 67: 256-65, 2014.
[Journal]
3)  Tamim S, Vo DT, Uren PJ, Qiao M, Bindewald E, Kasprzak WK, Shapiro BA, Nakaya HI, Burns SC, Araujo PR, Nakano I, Radek AJ, Kuersten S, Smith AD, Penalva LO.
Genomic Analyses Reveal Broad Impact of miR-137 on Genes Associated with Malignant Transformation and Neuronal Differentiation in Glioblastoma Cells.
PLoS ONE. 9: e85591, 2014.
[Journal]
4)  Afonin KA, Kasprzak WK, Bindewald E, Kireeva M, Viard M, Kashlev M, Shapiro BA.
In Silico Design and Enzymatic Synthesis of Functional RNA Nanoparticles.
Acc. Chem. Res. [Epub ahead of print], 2014.
[Journal]
5)  Kasprzak WK, Shapiro BA.
MPGAfold in dengue secondary structure prediction.
Methods Mol. Biol. 1138: 199-224, 2014.
[Journal]
6)  McFarland AP, Horner SM, Jarret A, Joslyn RC, Bindewald E, Shapiro BA, Delker DA, Hagedorn CH, Carrington M, Gale M, Savan R.
The favorable IFNL3 genotype escapes mRNA decay mediated by AU-rich elements and hepatitis C virus-induced microRNAs.
Nat. Immunol. 15: 72-9, 2014.
[Journal]
7)  Kasprzak WK, Shapiro BA.
Guo P, Haque F, eds.
Role of dynamics in RNA nanostructure design. In: RNA Nanotechnology and Therapeutics.
Florida: CRC Press; 2013. p. 139-158 [Book Chapter]
8)  Afonin KA, Viard M, Martins AN, Lockett SJ, Maciag AE, Freed EO, Heldman E, Jaeger L, Blumenthal R, Shapiro BA.
Activation of different split functionalities on re-association of RNA-DNA hybrids.
Nat Nanotechnol. 8: 296-304, 2013.
[Journal]
9)  Bindewald E, Shapiro BA.
Computational detection of abundant long-range nucleotide covariation in Drosophila genomes.
RNA. 19: 1171-1182, 2013.
[Journal]
10)  Zhong L, Wang JT, Wen D, Aris V, Soteropoulos P, Shapiro BA.
Effective Classification of MicroRNA Precursors Using Feature Mining and AdaBoost Algorithms.
OMICS. 17: 486-93, 2013.
[Journal]
Click Here to View Expanded Bibliography.

This page was last updated on 5/16/2014.