Identifying and Validating Networks of Oncology Biomarkers Mined From the Scientific Literature

被引:0
|
作者
Wager, Kim [1 ]
Chari, Dheepa [2 ,4 ]
Ho, Steffan [2 ]
Rees, Tomas [1 ]
Penner, Orion [3 ]
Schijvenaars, Bob J. A. [3 ]
机构
[1] Oxford PharmaGenesis, Oxford, England
[2] Pfizer Inc, New York, NY USA
[3] Digital Sci, London, England
[4] Pfizer Inc, 235 East 42nd St, New York, NY 10017 USA
关键词
Biomarkers; cancer; natural language processing; network analysis; text-mining;
D O I
暂无
中图分类号
R73 [肿瘤学];
学科分类号
100214 ;
摘要
Biomarkers, as measurements of defined biological characteristics, can play a pivotal role in estimations of disease risk, early detection, differential diagnosis, assessment of disease progression and outcomes prediction. Studies of cancer biomarkers are published daily; some are well characterized, while others are of growing interest. Managing this flow of information is challenging for scientists and clinicians. We sought to develop a novel text-mining method employing biomarker co-occurrence processing applied to a deeply indexed full-text database to generate time-interval-delimited biomarker co-occurrence networks. Biomarkers across 6 cancer sites and a cancer-agnostic network were successfully characterized in terms of their emergence in the published literature and the context in which they are described. Our approach, which enables us to find publications based on biomarker relationships, identified biomarker relationships not known to existing interaction networks. This search method finds relevant literature that could be missed with keyword searches, even if full text is available. It enables users to extract relevant biological information and may provide new biological insights that could not be achieved by individual review of papers.
引用
收藏
页数:15
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