Characterization of Protein Complexes and Subcomplexes in Protein-Protein Interaction Databases
Joint Authors
Zaki, Nazar
Mohamed, Elfadil A.
Mora, Antonio
Source
Biochemistry Research International
Issue
Vol. 2015, Issue 2015 (31 Dec. 2015), pp.1-12, 12 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2015-02-04
Country of Publication
Egypt
No. of Pages
12
Main Subjects
Abstract EN
The identification and characterization of protein complexes implicated in protein-protein interaction data are crucial to the understanding of the molecular events under normal and abnormal physiological conditions.
This paper provides a novel characterization of subcomplexes in protein interaction databases, stressing definition and representation issues, quantification, biological validation, network metrics, motifs, modularity, and gene ontology (GO) terms.
The paper introduces the concept of “nested group” as a way to represent subcomplexes and estimates that around 15% of those nested group with the higher Jaccard index may be a result of data artifacts in protein interaction databases, while a number of them can be found in biologically important modular structures or dynamic structures.
We also found that networkcentralities, enrichment in essential proteins, GO terms related to regulation, imperfect 5-cliquemotifs, and higher GO homogeneity can be used to identify proteins in nested complexes.
American Psychological Association (APA)
Zaki, Nazar& Mohamed, Elfadil A.& Mora, Antonio. 2015. Characterization of Protein Complexes and Subcomplexes in Protein-Protein Interaction Databases. Biochemistry Research International،Vol. 2015, no. 2015, pp.1-12.
https://search.emarefa.net/detail/BIM-1057607
Modern Language Association (MLA)
Zaki, Nazar…[et al.]. Characterization of Protein Complexes and Subcomplexes in Protein-Protein Interaction Databases. Biochemistry Research International No. 2015 (2015), pp.1-12.
https://search.emarefa.net/detail/BIM-1057607
American Medical Association (AMA)
Zaki, Nazar& Mohamed, Elfadil A.& Mora, Antonio. Characterization of Protein Complexes and Subcomplexes in Protein-Protein Interaction Databases. Biochemistry Research International. 2015. Vol. 2015, no. 2015, pp.1-12.
https://search.emarefa.net/detail/BIM-1057607
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1057607