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A Computational Model for Predicting Protein Interactions Based on Multidomain Collaboration
July-Aug. 2012 (vol. 9 no. 4)
pp. 1081-1090
ASCII Text
x 
 
Suk-Hoon Jung, Woo-Hyuk Jang, Dong-Soo Han, "A Computational Model for Predicting Protein Interactions Based on Multidomain Collaboration," IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 9, no. 4, pp. 1081-1090, July-Aug., 2012.
 
 
BibTex
x
 
@article{ 10.1109/TCBB.2012.55,
author = { Suk-Hoon Jung and Woo-Hyuk Jang and Dong-Soo Han},
title = {A Computational Model for Predicting Protein Interactions Based on Multidomain Collaboration},
journal ={IEEE/ACM Transactions on Computational Biology and Bioinformatics},
volume = {9},
number = {4},
issn = {1545-5963},
year = {2012},
pages = {1081-1090},
doi = {http://doi.ieeecomputersociety.org/10.1109/TCBB.2012.55},
publisher = {IEEE Computer Society},
address = {Los Alamitos, CA, USA},
}
 
 
RefWorks Procite/RefMan/Endnote
x 
 
TY - JOUR
JO - IEEE/ACM Transactions on Computational Biology and Bioinformatics
TI - A Computational Model for Predicting Protein Interactions Based on Multidomain Collaboration
IS - 4
SN - 1545-5963
SP1081
EP1090
EPD - 1081-1090
A1 - Suk-Hoon Jung,
A1 - Woo-Hyuk Jang,
A1 - Dong-Soo Han,
PY - 2012
KW - proteins
KW - biology computing
KW - groupware
KW - multidomain interaction
KW - multidomain collaboration
KW - domain-based computational models
KW - protein-protein interactions
KW - PPI
KW - domain combination
KW - single domain interaction
KW - Proteins
KW - Couplings
KW - Computational modeling
KW - Predictive models
KW - Equations
KW - Accuracy
KW - Databases
KW - computational model.
KW - Classification
KW - protein interaction
KW - domain interaction
KW - multidomain collaboration
VL - 9
JA - IEEE/ACM Transactions on Computational Biology and Bioinformatics
ER -
 
Suk-Hoon Jung, Dept. of Inf. & Commun. Eng., Korea Adv. Inst. of Sci. & Technol., Daejeon, South Korea
Woo-Hyuk Jang, Dept. of Inf. & Commun. Eng., Korea Adv. Inst. of Sci. & Technol., Daejeon, South Korea
Dong-Soo Han, Dept. of Inf. & Commun. Eng., Korea Adv. Inst. of Sci. & Technol., Daejeon, South Korea
Recently, several domain-based computational models for predicting protein-protein interactions (PPIs) have been proposed. The conventional methods usually infer domain or domain combination (DC) interactions from already known interacting sets of proteins, and then predict PPIs using the information. However, the majority of these models often have limitations in providing detailed information on which domain pair (single domain interaction) or DC pair (multidomain interaction) will actually interact for the predicted protein interaction. Therefore, a more comprehensive and concrete computational model for the prediction of PPIs is needed. We developed a computational model to predict PPIs using the information of intraprotein domain cohesion and interprotein DC coupling interaction. A method of identifying the primary interacting DC pair was also incorporated into the model in order to infer actual participants in a predicted interaction. Our method made an apparent improvement in the PPI prediction accuracy, and the primary interacting DC pair identification was valid specifically in predicting multidomain protein interactions. In this paper, we demonstrate that 1) the intraprotein domain cohesion is meaningful in improving the accuracy of domain-based PPI prediction, 2) a prediction model incorporating the intradomain cohesion enables us to identify the primary interacting DC pair, and 3) a hybrid approach using the intra/interdomain interaction information can lead to a more accurate prediction.

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Index Terms:
proteins,biology computing,groupware,multidomain interaction,multidomain collaboration,domain-based computational models,protein-protein interactions,PPI,domain combination,single domain interaction,Proteins,Couplings,Computational modeling,Predictive models,Equations,Accuracy,Databases,computational model.,Classification,protein interaction,domain interaction,multidomain collaboration
Citation:
Suk-Hoon Jung, Woo-Hyuk Jang, Dong-Soo Han, "A Computational Model for Predicting Protein Interactions Based on Multidomain Collaboration," IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 9, no. 4, pp. 1081-1090, July-Aug. 2012, doi:10.1109/TCBB.2012.55
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