Hierarchical Text Categorization as a Tool of Associating Genes with Gene Ontology Codes

The hierarchical text categorization framework is designed, which helps visualize the results, address the scalability issue, improve classiflcation accuracy and trade ofi between precision and recall.

Abstract

A great deal of genomics information accumulated through years is available nowadays in on-line text repositories such as Medline. These resources are essential for biomedical researchers in their everyday activities on planning and performing experiments and verifying the results. However, these resources do not still provide adequate mechanisms for retrieving the requisite information. We propose a new tool for assisting biologists with literature search for the task of associating genes with Gene Ontology codes. Unlike previous research, we design the hierarchical text categorization framework to address this problem. The hierarchical approach helps visualize the results, address the scalability issue, improve classiflcation accuracy and trade ofi between precision and recall.