SETTER - RNA SEcondary sTructure-based TERtiary Structure Similarity Algorithm

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216208%3A11320%2F11%3A10099578" target="_blank" >RIV/00216208:11320/11:10099578 - isvavai.cz</a>

Result on the web

<a href="http://www.springerlink.com/content/m58w38710uh34771/" target="_blank" >http://www.springerlink.com/content/m58w38710uh34771/</a>

DOI - Digital Object Identifier

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Result language

angličtina

Original language name

SETTER - RNA SEcondary sTructure-based TERtiary Structure Similarity Algorithm

Original language description

The recent interest in function of various RNA structures, reflected in the growth of solved RNA structures in PDB, calls for methods for effective and efficient similarity search in RNA structural databases. Here, we propose a method called SETTER (RNASEcondary sTructure-based TERtiary structure similarity) based on partitioning of RNA structures into so-called generalized secondary structure units (CSSU). We introduce a. fast similarity method exploiting RMSD-based algorithm allowing to assess distance to a pair of GSSU, and a method for aggregating these partial distances into a final distance corresponding to structural similarity of the examined RNA structures. Our algorithm yields not only the distance but also a superposition allowing to visualize the structural similarity. Comparative experiments show that our proposed method is competitive with the best; existing solutions, both in terms of effectiveness and efficiency.

Czech name

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Czech description

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Type

J_x - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)

CEP classification

IN - Informatics

OECD FORD branch

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Project

<a href="/en/project/GA201%2F09%2F0683" target="_blank" >GA201/09/0683: Similarity searching in very large multimedia databases</a><br>

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2011

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Lecture Notes in Bioinformatics

ISSN

0302-9743

e-ISSN

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Volume of the periodical

6674

Issue of the periodical within the volume

5

Country of publishing house

DE - GERMANY

Number of pages

12

Pages from-to

37-48

UT code for WoS article

000296688700008

EID of the result in the Scopus database

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