Figure 1
From: Cluster analysis of protein array results via similarity of Gene Ontology annotation
Methodology for clustering a list of proteins by graph similarity of Gene Ontology annotation. (A) The input to the methodology consists of a list of proteins and selection of one aspect of the Gene Ontology, i.e., Biological Process (BP), Molecular Function (MF) or Cellular Component (CC). The Bioconductor method simUI is then employed to generate a matrix of graph similarities between each pair of proteins in the list. (B) The Bioconductor method silcheck uses the similarity matrix to select the number of clusters, k. The Bioconductor method pam uses the similarity matrix and k to cluster the proteins. (C) The clustering result is then examined in further detail to produce a biological interpretation of the GO annotation of the inputted list of proteins.