Detail publikačního výsledku

Combined Density- and Grid- Based Method for Clustering of Protein Substructures

BURGETOVÁ, I.

Originální název

Combined Density- and Grid- Based Method for Clustering of Protein Substructures

Anglický název

Combined Density- and Grid- Based Method for Clustering of Protein Substructures

Druh

Stať ve sborníku mimo WoS a Scopus

Originální abstrakt

Data mining techniques may reveal interesting knowledge in various datasets. The biological databases are enormously large and therefore, data mining techniques could be extremely helpful to extract the knowledge from them. In our study, we focused on data mining in PDB - Protein Data Bank. We used cluster analysis to identify the sequences that occur in limited number of structural conformations (sequence-structure fragments). This knowledge about protein fragments can be used in protein structure predictions. In this paper, we present a combined density- and grid-based method that we developed for clustering of protein structures. We also compare this method with a simple density-based clustering method that we used in the first part of our study to prove the existence of protein sequences that occur in more than one structural conformation but the number of its structural conformations is limited.

Anglický abstrakt

Data mining techniques may reveal interesting knowledge in various datasets. The biological databases are enormously large and therefore, data mining techniques could be extremely helpful to extract the knowledge from them. In our study, we focused on data mining in PDB - Protein Data Bank. We used cluster analysis to identify the sequences that occur in limited number of structural conformations (sequence-structure fragments). This knowledge about protein fragments can be used in protein structure predictions. In this paper, we present a combined density- and grid-based method that we developed for clustering of protein structures. We also compare this method with a simple density-based clustering method that we used in the first part of our study to prove the existence of protein sequences that occur in more than one structural conformation but the number of its structural conformations is limited.

Klíčová slova

Cluster analysis, data mining, PDB, sequence-structure fragments, protein structure prediction

Klíčová slova v angličtině

Cluster analysis, data mining, PDB, sequence-structure fragments, protein structure prediction

Autoři

BURGETOVÁ, I.

Rok RIV

2010

Vydáno

04.02.2009

Nakladatel

Vydavateľstvo STU

Místo

Brno

ISBN

978-80-227-3015-0

Kniha

ZNALOSTI 2009, Proceedings of the 8th annual conference

Strany od

201

Strany do

212

Strany počet

12

BibTex

@inproceedings{BUT30201,
  author="Ivana {Burgetová}",
  title="Combined Density- and Grid- Based Method for Clustering of Protein Substructures",
  booktitle="ZNALOSTI 2009, Proceedings of the 8th annual conference",
  year="2009",
  pages="201--212",
  publisher="Vydavateľstvo STU",
  address="Brno",
  isbn="978-80-227-3015-0"
}