Table 2.

Text mining tools for drug repositioning.

Name	Class	Input	Output	Description	Web Site	Ref
Biovista	Static	Biological knowledge	Gene-protein relationships	A mining framework to extract gene-protein relationships.	http://www.biovista.com/	68
BioWisdom	Static	Ontology	Drug-disease, drug-target relationships	A platform to discover novel biological entity relationships.	http://www.biowisdom.com	39
FACTA+	Static	Tekst	Abstracts and linked concepts	A system to find associated concepts based on a user query	http://www.nactem.ac.uk/facta/cepts based on a user query	102
EDGAR	Static	UMLS terms	Drug-gene relationships	A system to extract relationships between drugs and genes involved in cancer using syntactic analysis	https://www.sec.gov/	103
PolySearch	Dynamic	Bio-entities	Drug-disease, Drug-gene relationships	A web service to extract links between biological terms	http://wishart.biology.ualberta.ca	41
TextFlow	Dynamic	Document	Knowledge	A web-based text mining and natural language processing platform	http://textflows.org/	42
EXTRACT2	Static	Bio-entities	Entity relationships	A text mining-based tool to map biological entities to ontology/taxonomy entries	http://extract.jensenlab.org/	104
Anni 2.0	Static	Bio-entities	Linked concepts	An ontology interface of a text mining tool to extract conceptsrelationships	http://biosemantics.org/anni	69
DrugQuest	Static	Drugs	Drug-drug relations	A knowledge discovery tool todetect drug-drug relationships	http://bioinformatics.med.uoc.gr	40
MaNER	Dynamic	Medical Document	Relevant entities	A rule-based system to mine relevant entities in medical documents	-	43
BEST	Dynamic	Biomedical Literature	Relevant bio-entities	A knowledge discovery system to extract relevant bio-entities.	http://best.korea.ac.kr.	44
Alibaba	Dynamic	Bio-entities	Linked concepts	A tool to fit a PubMed query as a graphical network	-	45