Gene Ontology Semantic Similarity Analysis Using GOSemSim
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The GOSemSim package, an R-based tool within the Bioconductor project, offers several methods based on information content and graph structure for measuring semantic similarity among GO terms, gene products and gene clusters. In this chapter, I illustrate the use of GOSemSim on a list of regulators in preimplantation embryos. A step-by-step analysis was provided as well as instructions on interpretation and visualization of the results. GOSemSim is open-source and is available from https://www.bioconductor.org/packages/GOSemSim.
Key wordsSemantic similarity GOSemSim Gene ontology Functional prediction Reproducible research
I thank Drs. Yin Ge and Zhongtian Xu for providing useful feedback and helpful comments on the manuscript. This work was supported by Startup funds from Southern Medical University (G618289088).
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