Difference between revisions of "Domain-based PPI network by Weighted Mutual Information (WMI)"
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| − | + | Functional protein-protein interaction (PPI) networks elucidate molecular pathways underlying complex phenotypes, including those of human diseases. Extrapolation of domain-domain interac-tions (DDIs) from known PPIs is a major domain-based method for inferring functional PPI net-works. However, the protein domain is a functional unit of the protein. Therefore, we should be able to effectively infer functional interactions between proteins based on the co-occurrence of do-mains. | |
| − | + | Here, we present a method for inferring accurate functional PPIs based on the similarity of domain composition between proteins by weighted mutual information that assigned different weights to the domains based on their genome-wide frequencies. | |
| − | + | ||
| − | *[http://www.netbiolab.org/wiki/images/0/09/WMI_program.zip Source codes for | + | *[http://www.netbiolab.org/wiki/images/0/09/WMI_program.zip Source codes for WMI calculation] |
| − | *[http://www.netbiolab.org/wiki/images/1/1e/SC_WMI_12K.txt | + | *[http://www.netbiolab.org/wiki/images/1/1e/SC_WMI_12K.txt Domain-based yeast PPI network by WMI] |
| − | *[http://www.netbiolab.org/wiki/images/4/44/HS_WMI_94K.txt | + | *[http://www.netbiolab.org/wiki/images/4/44/HS_WMI_94K.txt Domain-based human PPI network by WMI] |
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| − | Citation: Jung Eun Shim and Insuk Lee, Weighted mutual information analysis | + | Citation: Jung Eun Shim and Insuk Lee, Weighted mutual information analysis substantially improves domain-based functional network models (Under review) |
Revision as of 16:17, 26 March 2016
Functional protein-protein interaction (PPI) networks elucidate molecular pathways underlying complex phenotypes, including those of human diseases. Extrapolation of domain-domain interac-tions (DDIs) from known PPIs is a major domain-based method for inferring functional PPI net-works. However, the protein domain is a functional unit of the protein. Therefore, we should be able to effectively infer functional interactions between proteins based on the co-occurrence of do-mains. Here, we present a method for inferring accurate functional PPIs based on the similarity of domain composition between proteins by weighted mutual information that assigned different weights to the domains based on their genome-wide frequencies.
- Source codes for WMI calculation
- Domain-based yeast PPI network by WMI
- Domain-based human PPI network by WMI
Citation: Jung Eun Shim and Insuk Lee, Weighted mutual information analysis substantially improves domain-based functional network models (Under review)
