We show that a protein which plays an important indirect mediator role between two diseases is not necessarily a hub in the PPI network. The results present the relationship between mediator role and centrality, as well as between mediator role and functional properties of these proteins. We have quantified the number and strength of IP-mediated indirect effects between the five groups of disease proteins and hypothetically identified the most important mediator proteins linking heart disease to obesity or diabetes in the IP network. The five investigated diseases were (1) various cancers, (2) heart diseases, (3) obesity, (4) diabetes and (5) autism. Here we suggest a new method to study the relationships between topology and functionality of the protein-protein interaction network, by identifying key mediator proteins possibly maintaining indirect relationships among proteins causing various diseases.īased on the i2d and OMIM databases, we have constructed (i) a network of proteins causing five selected diseases (DP, disease proteins) plus their interacting partners (IP, non-disease proteins), the DPIP network and (ii) a protein network showing only these IPs and their interactions, the IP network. Novel tools in network analysis provide the possibility to quantify the key interacting proteins in large networks as well as proteins that connect them. Analyzing the interaction network of proteins in the cell can be the key to understand how complex processes lead to diseases. Systems biology makes it possible to study larger and more intricate systems than before, so it is now possible to look at the molecular basis of several diseases in parallel. The key features of this software are (1) the customisable layout, representing node attributes, (2) the implementation of novel network indices and (3) the rich linkage to other modules of the CoSBiLab platform (tools for modelling reaction-diffusion systems, stochastic dynamical simulators, statistical analysis and parameter inference). Instead of competing, we aim to cooperate with other existing softwares, by providing compatible input and output and focusing on what is missing in other applications. trophic overlap) network indices, as well as provides a fast and comfortable environment for network ecologists. Most of available network analysis softwares are developed by either sociologists or (molecular) systems biologists: our purpose was to create a tool that is designed by considering ecological principles but general enough for supporting multidisciplinary research. Continued abuse of our services will cause your IP address to be blocked indefinitely.We present CoSBiLab Graph 1.0, the freely available network visualisation and analysis module of CoSBiLab (). Please fill out the CAPTCHA below and then click the button to indicate that you agree to these terms. If you wish to be unblocked, you must agree that you will take immediate steps to rectify this issue. If you do not understand what is causing this behavior, please contact us here. If you promise to stop (by clicking the Agree button below), we'll unblock your connection for now, but we will immediately re-block it if we detect additional bad behavior.
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