Paper Info
Title
LimTox: a web tool for applied text mining of adverse event and toxicity associations of compounds, drugs and genes.
Abstract
A considerable effort has been devoted to retrieve systematically information for genes and proteins as well as relationships between them. Despite the importance of chemical compounds and drugs as a central bio-entity in pharmacological and biological research, only a limited number of freely available chemical text-mining/search engine technologies are currently accessible. Here we present LimTox (Literature Mining for Toxicology), a web-based online biomedical search tool with special focus on adverse hepatobiliary reactions. It integrates a range of text mining, named entity recognition and information extraction components. LimTox relies on machine-learning, rule-based, pattern-based and term lookup strategies. This system processes scientific abstracts, a set of full text articles and medical agency assessment reports. Although the main focus of LimTox is on adverse liver events, it enables also basic searches for other organ level toxicity associations (nephrotoxicity, cardiotoxicity, thyrotoxicity and phospholipidosis). This tool supports specialized search queries for: chemical compounds/drugs, genes (with additional emphasis on key enzymes in drug metabolism, namely P450 cytochromes-CYPs) and biochemical liver markers. The LimTox website is free and open to all users and there is no login requirement. LimTox can be accessed at: http://limtox.bioinfo.cnio.es
Year
DOI
Venue
2017
10.1093/nar/gkx462
NUCLEIC ACIDS RESEARCH
Field
DocType
Volume
World Wide Web,Text mining,Search engine,Biology,Login,Adverse effect,Information extraction,Bioinformatics,Genetics,Named-entity recognition
Journal
45
Issue
ISSN
Citations 
W1
0305-1048
3
PageRank 
References 
Authors
0.38
5
6
Name
Order
Citations
PageRank
Andrés Cañada1714.31
Salvador Capella-Gutiérrez2966.47
Obdulia Rabal31628.61
Julen Oyarzabal4604.85
Alfonso Valencia52577322.43
Martin Krallinger676335.65