SETTER - RNA SEcondary sTructure-based TERtiary Structure Similarity Algorithm
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60461373%3A22310%2F11%3A43892044" target="_blank" >RIV/60461373:22310/11:43892044 - isvavai.cz</a>
Result on the web
<a href="http://dx.doi.org/10.1007/978-3-642-21260-4_8" target="_blank" >http://dx.doi.org/10.1007/978-3-642-21260-4_8</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1007/978-3-642-21260-4_8" target="_blank" >10.1007/978-3-642-21260-4_8</a>
Alternative languages
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 textbf{SETTER} (RNA textbf{SE}condary stextbf{T}ructure-based textbf{TER}tiary structure similarity) based on partitioning of RNA structures into so-called generalized secondary structure units (GSSU). We introduce a fast similarity method exploiting RMSD-basedalgorithm 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 alsoa 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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Classification
Type
D - Article in proceedings
CEP classification
IN - Informatics
OECD FORD branch
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Result continuities
Project
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Continuities
Z - Vyzkumny zamer (s odkazem do CEZ)
Others
Publication year
2011
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Article name in the collection
ISBRA'11 Proceedings of the 7th international conference on Bioinformatics research and applications
ISBN
978-3-642-21259-8
ISSN
0302-9743
e-ISSN
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Number of pages
12
Pages from-to
37-48
Publisher name
SPRINGER
Place of publication
Berlin
Event location
Changsha, China
Event date
May 27, 2011
Type of event by nationality
WRD - Celosvětová akce
UT code for WoS article
000296688700008