Abstract
The organization of global protein interaction networks (PINs) has been extensively studied and heatedly debated. We revisited this issue in the context of the analysis of dynamic organization of a PIN in the yeast cell cycle. Statistically significant bimodality was observed when analyzing the distribution of the differences in expression peak between periodically expressed partners. A close look at their behavior revealed that date and party hubs derived from this analysis have some distinct features. There are no significant differences between them in terms of protein essentiality, expression correlation and semantic similarity derived from Gene Ontology (GO) biological process hierarchy. However, date hubs exhibit significantly greater values than party hubs in terms of semantic similarity derived from both GO molecular function and cellular component hierarchies. Relating to three-dimensional structures, we found that both single - and multi-interface proteins could become date hubs coordinating multiple functions performed at different times while party hubs are mainly multi-interface proteins. Furthermore, we constructed and analyzed a PPI network specific to the human cell cycle and highlighted that the dynamic organization in human interactome is far more complex than the dichotomy of hubs observed in the yeast cell cycle.
Original language | English |
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Pages (from-to) | 1264-1270 |
Number of pages | 7 |
Journal | IEEE/ACM Transactions on Computational Biology and Bioinformatics |
Volume | 11 |
Issue number | 6 |
Early online date | 22 Apr 2014 |
DOIs | |
Publication status | Published (in print/issue) - 4 Dec 2014 |
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Haiying Wang
- School of Computing - Reader
- Faculty Of Computing, Eng. & Built Env. - Reader
Person: Academic
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Huiru (Jane) Zheng
- School of Computing - Professor of Computer Sciences
- Faculty Of Computing, Eng. & Built Env. - Full Professor
Person: Academic