Network Alignment, applied to Protein-Protein Interaction (PPI) networks, finds its applications in the validation of interactions and the prediction of new ones, as well as for extracting conserved subnetworks in a set of given PPI networks. Networks with or without using external knowledge, such as sequence similarity. It aims toįind the "best" one-to-one correspondence between nodes from two input Network Alignment is a computationally hard bioinformatic problem. CytoGEDEVO can align networks with focus on biological data, given that such are provided, and is even able to ignore network topology completely if desired (note that while the name might suggest otherwise, this new version of GEDEVO is not limited to the GED!). Optionally, any number of other node similarity or distance measures can be incorporated to guide the alignment process. GEDEVO stands for Graph Edit Distance + EVOlution and it utilizes theĮvolutionary computing strategies for solving the so-called network alignment problem using Graph Edit Distance. This is a new version that obsoletes the old version published in 2013.įree download is available from the Cytoscape app store and the download section below. CytoGEDEVO is a Cytoscape plugin that implements the GEDEVO method for pairwise global network alignment.
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