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Literature DB >> 6694904

Generating non-overlapping displays of nucleic acid secondary structure.

B A Shapiro, J Maizel, L E Lipkin, K Currey, C Whitney.

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.

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Year: 1984 PMID： 6694904 PMCID： PMC320985 DOI： 10.1093/nar/12.1part1.75

Source DB: PubMed Journal: Nucleic Acids Res ISSN： 0305-1048 Impact factor: 16.971

8 in total

1. Computer method for predicting the secondary structure of single-stranded RNA.

Authors: G M Studnicka; G M Rahn; I W Cummings; W A Salser
Journal: Nucleic Acids Res Date: 1978-09 Impact factor: 16.971

2. Method for predicting RNA secondary structure.

Authors: J M Pipas; J E McMahon
Journal: Proc Natl Acad Sci U S A Date: 1975-06 Impact factor: 11.205

3. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information.

Authors: M Zuker; P Stiegler
Journal: Nucleic Acids Res Date: 1981-01-10 Impact factor: 16.971

4. Fast algorithm for predicting the secondary structure of single-stranded RNA.

Authors: R Nussinov; A B Jacobson
Journal: Proc Natl Acad Sci U S A Date: 1980-11 Impact factor: 11.205

5. Computer-aided prediction of RNA secondary structures.

Authors: P E Auron; W P Rindone; C P Vary; J J Celentano; J N Vournakis
Journal: Nucleic Acids Res Date: 1982-01-11 Impact factor: 16.971

6. Splice junctions: association with variation in protein structure.

Authors: C S Craik; W J Rutter; R Fletterick
Journal: Science Date: 1983-06-10 Impact factor: 47.728

7. An interactive technique for the display of nucleic acid secondary structure.

Authors: B A Shapiro; L E Lipkin; J Maizel
Journal: Nucleic Acids Res Date: 1982-11-11 Impact factor: 16.971

8. The intervening sequence of a mouse beta-globin gene is transcribed within the 15S beta-globin mRNA precursor.

Authors: S M Tilghman; P J Curtis; D C Tiemeier; P Leder; C Weissmann
Journal: Proc Natl Acad Sci U S A Date: 1978-03 Impact factor: 11.205

8 in total

12 in total

1. Inhibition of SV40 gene expression by microinjected small antisense RNA and DNA molecules.

Authors: M Graessmann; G Michaels; B Berg; A Graessmann
Journal: Nucleic Acids Res Date: 1991-01-11 Impact factor: 16.971

2. Characterization of the 7S RNA and its gene from halobacteria.

Authors: A Moritz; W Goebel
Journal: Nucleic Acids Res Date: 1985-10-11 Impact factor: 16.971

3. RAGA: RNA sequence alignment by genetic algorithm.

Authors: C Notredame; E A O'Brien; D G Higgins
Journal: Nucleic Acids Res Date: 1997-11-15 Impact factor: 16.971

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

Authors: P De Rijk; R De Wachter
Journal: Nucleic Acids Res Date: 1997-11-15 Impact factor: 16.971

5. RNA2Drawer: geometrically strict drawing of nucleic acid structures with graphical structure editing and highlighting of complementary subsequences.

Authors: Philip Z Johnson; Wojciech K Kasprzak; Bruce A Shapiro; Anne E Simon
Journal: RNA Biol Date: 2019-08-26 Impact factor: 4.652

6. Complete nucleotide sequence of an attenuated hepatitis A virus: comparison with wild-type virus.

Authors: J I Cohen; B Rosenblum; J R Ticehurst; R J Daemer; S M Feinstone; R H Purcell
Journal: Proc Natl Acad Sci U S A Date: 1987-04 Impact factor: 11.205

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

Authors: Jacob S Lu; Eckart Bindewald; Wojciech K Kasprzak; Bruce A Shapiro
Journal: Bioinformatics Date: 2018-12-15 Impact factor: 6.937

8. An RNA secondary structure workbench.

Authors: H M Martinez
Journal: Nucleic Acids Res Date: 1988-03-11 Impact factor: 16.971

9. Thermodynamic stability and statistical significance of potential stem-loop structures situated at the frameshift sites of retroviruses.

Authors: S Y Le; J H Chen; J V Maizel
Journal: Nucleic Acids Res Date: 1989-08-11 Impact factor: 16.971

10. The 7S RNA from tomato leaf tissue resembles a signal recognition particle RNA and exhibits a remarkable sequence complementarity to viroids.

Authors: B Haas; A Klanner; K Ramm; H L Sänger
Journal: EMBO J Date: 1988-12-20 Impact factor: 11.598