GO-terms Semantic Similarity Measures

Four methods have been presented to determine the semantic similarity of two GO terms based on the annotation statistics of their common ancestor terms (Resnik [1], Jiang [2], Lin [3] and Schlicker [4]). Wang [5] proposed a new method to measure the similarity based on the graph structure of GO. Each of these methods has its own advantages and weaknesses. GOSemSim package [6] is developed to compute semantic similarity among GO terms, sets of GO terms, gene products, and gene clusters, providing both five methods mentioned above. I have developed another package, DOSE, for measuring semantic similarity among DO terms and gene products at disease perspective.