Clustering of Protein Substructures for Discovery of a Novel
Class of Sequence-Structure Fragments

D 2010

Clustering of Protein Substructures for Discovery of a Novel Class of Sequence-Structure Fragments

RUDOLFOVÁ, Ivana, Jaroslav ZENDULKA and Matej LEXA

Basic information

Original name

Clustering of Protein Substructures for Discovery of a Novel Class of Sequence-Structure Fragments

Name in Czech

Shlukování proteinových substruktur pro nalezení nových sekvenčně-strukturních fragmentů

Authors

RUDOLFOVÁ, Ivana (203 Czech Republic, guarantor), Jaroslav ZENDULKA (203 Czech Republic) and Matej LEXA (703 Slovakia, belonging to the institution)

Edition

Heidelberg, DE, ITBAM 2010 (Information Technology in Bio- and Medical Informatics), LNCS 6266, p. 94-101, 8 pp. 2010

Publisher

Springer Verlag

Other information

Language

English

Type of outcome

Stať ve sborníku

Field of Study

10201 Computer sciences, information science, bioinformatics

Country of publisher

Germany

Confidentiality degree

není předmětem státního či obchodního tajemství

Publication form

printed version "print"

Impact factor

Impact factor: 0.402 in 2005

RIV identification code

RIV/00216224:14330/10:00067213

Organization unit

Faculty of Informatics

ISBN

978-3-642-15019-7

ISSN

DOI

http://dx.doi.org/10.1007/978-3-642-15020-3_9

UT WoS

000286166000009

Keywords in English

Clustering; density-based clustering; clustering of protein substructures; sequence-structure relationships in proteins

Abstract

V originále

In this paper, we propose a novel method for clustering of protein substructures that we developed to study the relationships between protein sequences and their corresponding structures. We show the basic properties of the new method and the results of the comparison to other commonly used methods for clustering of protein structures. The main advantage of our method is its high efficiency and scalability, which are key factors for analyzing large data sets. Finally, we outline a procedure for finding sequence profiles that tend to occur in more than one structural conformation but the number of their structural conformations is limited. This procedure is based on our method for protein substructure clustering.

Links

MSM0021622419, plan (intention)

Name: Vysoce paralelní a distribuované výpočetní systémy

Investor: Ministry of Education, Youth and Sports of the CR, Highly Parallel and Distributed Computing Systems

Citovat

RUDOLFOVÁ, Ivana, Jaroslav ZENDULKA and Matej LEXA. Clustering of Protein Substructures for Discovery of a Novel Class of Sequence-Structure Fragments. In ITBAM 2010 (Information Technology in Bio- and Medical Informatics), LNCS 6266. Heidelberg, DE: Springer Verlag, 2010, p. 94-101. ISBN 978-3-642-15019-7. Available from: https://dx.doi.org/10.1007/978-3-642-15020-3_9.

@inproceedings{899211,
   author = {Rudolfová, Ivana and Zendulka, Jaroslav and Lexa, Matej},
   address = {Heidelberg, DE},
   booktitle = {ITBAM 2010 (Information Technology in Bio- and Medical Informatics), LNCS 6266},
   doi = {http://dx.doi.org/10.1007/978-3-642-15020-3_9},
   keywords = {Clustering; density-based clustering; clustering of protein substructures; sequence-structure relationships in proteins},
   howpublished = {tištěná verze "print"},
   language = {eng},
   location = {Heidelberg, DE},
   isbn = {978-3-642-15019-7},
   pages = {94-101},
   publisher = {Springer Verlag},
   title = {Clustering of Protein Substructures for Discovery of a Novel Class of Sequence-Structure Fragments},
   year = {2010}
}

TY  - JOUR
ID  - 899211
AU  - Rudolfová, Ivana - Zendulka, Jaroslav - Lexa, Matej
PY  - 2010
TI  - Clustering of Protein Substructures for Discovery of a Novel Class of Sequence-Structure Fragments
PB  - Springer Verlag
CY  - Heidelberg, DE
SN  - 9783642150197
KW  - Clustering
KW  - density-based clustering
KW  - clustering of protein substructures
KW  - sequence-structure relationships in proteins
N2  - In this paper, we propose a novel method for clustering of protein substructures that we developed to study the relationships between protein sequences and their corresponding structures. We show the basic properties of the new method and the results of the comparison to other commonly used methods for clustering of protein structures. The main advantage of our method is its high efficiency and scalability, which are key factors for analyzing large data sets. Finally, we outline a procedure for finding sequence profiles that tend to occur in more than one structural conformation but the number of their structural conformations is limited. This procedure is based on our method for protein substructure clustering.
ER  -

RUDOLFOVÁ, Ivana, Jaroslav ZENDULKA and Matej LEXA. Clustering of Protein Substructures for Discovery of a Novel Class of Sequence-Structure Fragments. In \textit{ITBAM 2010 (Information Technology in Bio- and Medical Informatics), LNCS 6266}. Heidelberg, DE: Springer Verlag, 2010, p.~94-101. ISBN~978-3-642-15019-7. Available from: https://dx.doi.org/10.1007/978-3-642-15020-3\_{}9.

Detailed Information on Publication Record