TY - GEN
T1 - Assessing the most effective depth for PPI analysis
AU - Blayney, Jaine K.
AU - Zheng, Huiru
AU - Wang, Haiying
AU - Azuaje, Francisco
PY - 2009/11/26
Y1 - 2009/11/26
N2 - Protein-protein interaction (PPI) networks are being increasingly used to support functional genomic research. PPI networks can consist of several thousand nodes and sampling is often used to extract meaningful information representative of the global network. However there has been relatively little research carried out on the impact of sampling and significance of depth on such networks. In this study, six PPI networks, three relevant to heart failure, one to asthma, and two consisting of randomly-selected proteins, are analyzed and compared through different network levels. The effect of network depth is examined in terms of network metrics, i.e. degree and betweenness centrality, and on the classification methods for identifying potentially significant nodes, which may represent novel therapeutic targets.
AB - Protein-protein interaction (PPI) networks are being increasingly used to support functional genomic research. PPI networks can consist of several thousand nodes and sampling is often used to extract meaningful information representative of the global network. However there has been relatively little research carried out on the impact of sampling and significance of depth on such networks. In this study, six PPI networks, three relevant to heart failure, one to asthma, and two consisting of randomly-selected proteins, are analyzed and compared through different network levels. The effect of network depth is examined in terms of network metrics, i.e. degree and betweenness centrality, and on the classification methods for identifying potentially significant nodes, which may represent novel therapeutic targets.
KW - Network depth
KW - Network-based drug target novel therapeutic identification
KW - Protein interactions
UR - http://www.scopus.com/inward/record.url?scp=70450168966&partnerID=8YFLogxK
U2 - 10.1109/IJCBS.2009.82
DO - 10.1109/IJCBS.2009.82
M3 - Conference contribution
AN - SCOPUS:70450168966
SN - 9780769537399
T3 - Proceedings - 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing, IJCBS 2009
SP - 286
EP - 292
BT - Proceedings - 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing, IJCBS 2009
T2 - 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing, IJCBS 2009
Y2 - 3 August 2009 through 5 August 2009
ER -