Bindewald E - Search Results

1

RNAJunction: a database of RNA junctions and kissing loops for three-dimensional structural analysis and nanodesign.

Bindewald E, Hayes R, Yingling YG, Kasprzak W, Shapiro BA. Bindewald E, et al. Nucleic Acids Res. 2008 Jan;36(Database issue):D392-7. doi: 10.1093/nar/gkm842. Epub 2007 Oct 18. Nucleic Acids Res. 2008. PMID: 17947325 Free PMC article.

2

Structural polymorphism of the HIV-1 leader region explored by computational methods.

Kasprzak W, Bindewald E, Shapiro BA. Kasprzak W, et al. Among authors: bindewald e. Nucleic Acids Res. 2005 Dec 20;33(22):7151-63. doi: 10.1093/nar/gki1015. Print 2005. Nucleic Acids Res. 2005. PMID: 16371347 Free PMC article.

3

RNA secondary structure prediction from sequence alignments using a network of k-nearest neighbor classifiers.

Bindewald E, Shapiro BA. Bindewald E, et al. RNA. 2006 Mar;12(3):342-52. doi: 10.1261/rna.2164906. RNA. 2006. PMID: 16495232 Free PMC article.

4

CorreLogo: an online server for 3D sequence logos of RNA and DNA alignments.

Bindewald E, Schneider TD, Shapiro BA. Bindewald E, et al. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W405-11. doi: 10.1093/nar/gkl269. Nucleic Acids Res. 2006. PMID: 16845037 Free PMC article.

5

Bridging the gap in RNA structure prediction.

Shapiro BA, Yingling YG, Kasprzak W, Bindewald E. Shapiro BA, et al. Among authors: bindewald e. Curr Opin Struct Biol. 2007 Apr;17(2):157-65. doi: 10.1016/j.sbi.2007.03.001. Epub 2007 Mar 23. Curr Opin Struct Biol. 2007. PMID: 17383172 Review.

6

Computational strategies for the automated design of RNA nanoscale structures from building blocks using NanoTiler.

Bindewald E, Grunewald C, Boyle B, O'Connor M, Shapiro BA. Bindewald E, et al. J Mol Graph Model. 2008 Oct;27(3):299-308. doi: 10.1016/j.jmgm.2008.05.004. Epub 2008 May 24. J Mol Graph Model. 2008. PMID: 18838281 Free PMC article.

7

Protocols for the in silico design of RNA nanostructures.

Shapiro BA, Bindewald E, Kasprzak W, Yingling Y. Shapiro BA, et al. Among authors: bindewald e. Methods Mol Biol. 2008;474:93-115. doi: 10.1007/978-1-59745-480-3_7. Methods Mol Biol. 2008. PMID: 19031063 Review.

8

CyloFold: secondary structure prediction including pseudoknots.

Bindewald E, Kluth T, Shapiro BA. Bindewald E, et al. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W368-72. doi: 10.1093/nar/gkq432. Epub 2010 May 25. Nucleic Acids Res. 2010. PMID: 20501603 Free PMC article.

9

Use of RNA structure flexibility data in nanostructure modeling.

Kasprzak W, Bindewald E, Kim TJ, Jaeger L, Shapiro BA. Kasprzak W, et al. Among authors: bindewald e. Methods. 2011 Jun;54(2):239-50. doi: 10.1016/j.ymeth.2010.12.010. Epub 2010 Dec 14. Methods. 2011. PMID: 21163354 Free PMC article.

10

Correlating SHAPE signatures with three-dimensional RNA structures.

Bindewald E, Wendeler M, Legiewicz M, Bona MK, Wang Y, Pritt MJ, Le Grice SF, Shapiro BA. Bindewald E, et al. RNA. 2011 Sep;17(9):1688-96. doi: 10.1261/rna.2640111. Epub 2011 Jul 13. RNA. 2011. PMID: 21752927 Free PMC article.

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