Putative protein interaction analysis for human embryonic stem cell derived cardiomyocytes

摘要

Human embryonic stem cell derived cardiomyocytes (hESC-CMs) are well recognized as one of the most important topics in the biological and medical communities. However, related bioinformatics work on hESC-CMs has seldom reported because there are very scarce public hESC-CM expression data and very few samples. Moreover, traditional analysis based on protein protein interactions (PPIs), which are widely adopted in other kinds of species or organs, are used in very few studies as auxiliary tools to reveal partial topological characteristics. However, to our best knowledge, comprehensive investigation of interaction analysis for different hESC-CMs studies have never been reported. In view of these problems, we developed three different measures to conduct the putative protein interaction analysis of a number of hESC-CM studies with two different sets of PPI data. Results of our work gain deeper insight into related gene regulatory mechanisms and biological processes. Significant hESC-CMs with larger Fold Change (FC) values are found to have a larger probability to appear in PPI data. More interactions are observed in gene pairs with larger FC values than those with smaller ones. Significant hESC-CMs with larger FC values do not necessarily have a larger probability to be the hub ones in interaction networks.