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» Articles » PMID: 6694904

Generating Non-overlapping Displays of Nucleic Acid Secondary Structure

Overview
Journal Nucleic Acids Res
Publisher Oxford University Press
Specialty Biochemistry
Date 1984 Jan 11
PMID 6694904
Citations 12
Authors
B A Shapiro
J Maizel
L E LIPKIN
K Currey
C Whitney
Affiliations
Soon will be listed here.
Abstract

A new algorithm is presented which permits the display of nucleic acid secondary structure by computer. This algorithm circumvents the problem of overlapping portions of the molecule which is inherent in some other drawing programs. The results from this algorithm may also be used as input to the drawing algorithm previously reported in this journal [1] to untangle most of a drawing. The algorithm also represents the molecule in a form which makes visual comparisons for similarity quite easy since it guarantees that comparable features will reside in the same relative position in the drawings when the drawings are normalized.

Citing Articles

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Johnson P, Kasprzak W, Shapiro B, Simon A RNA Biol. 2019; 16(12):1667-1671.

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RiboSketch: versatile visualization of multi-stranded RNA and DNA secondary structure.

Lu J, Bindewald E, Kasprzak W, Shapiro B Bioinformatics. 2018; 34(24):4297-4299.

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DyNAMiC Workbench: an integrated development environment for dynamic DNA nanotechnology.

Grun C, Werfel J, Zhang D, Yin P J R Soc Interface. 2015; 12(111):20150580.

PMID: 26423437 PMC: 4614494. DOI: 10.1098/rsif.2015.0580.

R2R--software to speed the depiction of aesthetic consensus RNA secondary structures.

Weinberg Z, Breaker R BMC Bioinformatics. 2011; 12:3.

PMID: 21205310 PMC: 3023696. DOI: 10.1186/1471-2105-12-3.

RnaViz, a program for the visualisation of RNA secondary structure.

De Rijk P, De Wachter R Nucleic Acids Res. 1998; 25(22):4679-84.

PMID: 9358182 PMC: 147081. DOI: 10.1093/nar/25.22.4679.

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