An Efficient Parallelized Ontology Network-Based Semantic Similarity Measure for Big Biomedical Document Clustering

Abstract

Semantic mining is always a challenge for big biomedical text data. Ontology has been widely proved and used to extract semantic information. However, the process of ontology-based semantic similarity calculation is so complex that it cannot measure the similarity for big text data. To solve this problem, we propose a parallelized semantic similarity measurement method based on Hadoop MapReduce for big text data. At first, we preprocess and extract the semantic features from documents. Then, we calculate the document semantic similarity based on ontology network structure under MapReduce framework. Finally, based on the generated semantic document similarity, document clusters are generated via clustering algorithms. To validate the effectiveness, we use two kinds of open datasets. The experimental results show that the traditional methods can hardly work for more than ten thousand biomedical documents. The proposed method keeps efficient and accurate for big dataset and is of high parallelism and scalability.