Currently my big goal is to prepare data for an aggregate (at least, that's the word Dr. Hu and the rest of the team are using for it) being implemented by one of the grad students. The aggregate will take amino acid sequences for proteins and attempt to find a particular sequence called the sorting motif which determines the location for the protein. Typically protein-protein interaction (PPI) networks are represented as nodes and edges connecting the interacting proteins- proteins that interact must do so in the same location, so it follows that they would have similar or identical sorting motifs. To display the network visually, I first had to format a PPI data file for use in a network visualization software called CytoScape. This week I've been working with that data from CytoScape and attempting to form clusters using a clustering algorithm for unweighted networks (PCE). I ran into a particularly big (and rather embarrassing) issue where I was unable to get some of the Perl scripts included with the PCE to run properly- as it turns out I was simply not including the two 's apparently required by the scripts (I have never done any work with Perl so I had just assumed the 's included in the notation were simply a notice to insert your file name there). Now that that has been cleared up in my meeting on Monday, everything is running smoothly.