Mining gene-centric relationships from literature: the roles of gene mutation and gene expression in supporting drug discovery. (1st January 2014)

• Record Type: Journal Article
• Authors: Tari, Luis; Patel, Jagruti; Küntzer, Jan; Li, Ying; Peng, Zhengwei; Wang, Yuan; Aguiar, Laura; Cai, James
• Is Part Of: International journal of data mining and bioinformatics. Volume 10:Number 4(2014)
• Page Start: 357
• Page End: 373
• Publication Date: 2014-01-01
• Subjects: literature text mining -- drug discovery -- gene mutations -- phenotypes -- gene expression -- drug target -- biomarker -- information extraction; Data mining -- Periodicals; Bioinformatics -- Periodicals; 006.312
• Languages: English
• ISSNs: 1748-5673

Abstract

Identifying drug target candidates is an important task for early development throughout the drug discovery process. This process is supported by the development of new high-throughput technologies that enable better understanding of disease mechanism. It becomes critical to facilitate effective analysis of the large amount of biological data. However, with much of the biological knowledge represented in the literature in the form of natural text, analysis and interpretation of high-throughput data has not reached its potential effectiveness. In this paper, we describe our solution in employing text mining as a technique in finding scientific information for target and biomarker discovery from the biomedical literature. Our approach utilises natural language processing techniques to capture linguistic patterns for the extraction of biological knowledge from text. Additionally, we discuss how the extracted knowledge is used for the analysis of biological data such as next-generation sequencing and gene expression data.