Aligning protein-protein interaction networks using random neural networks

We have developed RNNI, a global alignment method for protein-protein interaction networks between species, using a random neural network model (RNN) tailored for the alignment problem. The benchmark of the method in comparison with other available alignment approaches was performed using a range of measurements. The alignment results of the human and yeast pair showed that RNNI is capable of generating alignments with large conserved networks with functionally-related protein pairs while maintaining the closeness to the naive- sequence homology approach (BLAST).