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FACTA+ specifications


Unique identifier OMICS_01181
Alternative names Finding Associated Concepts with Text Analysis, FACTA
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 0.8
Stability Stable
Maintained Yes


  • person_outline Yoshimasa Tsuruoka

Additional information


Publications for Finding Associated Concepts with Text Analysis

FACTA+ citations


PubRunner: A light weight framework for updating text mining results

PMCID: 5664974
PMID: 29152221
DOI: 10.5256/f1000research.12294.r22433

[…] maintained biological databases. The third group of tools are aimed directly at biologists and provide automatically generated databases (such as miRTex - ), knowledge discovery capabilities (such as FACTA+ - ) and many other uses.Several challenges face researchers when trying to reuse the biomedical text mining methods and data of other researchers. Firstly, data and particularly code is rarely […]


MyGeneFriends: A Social Network Linking Genes, Genetic Diseases, and Researchers

J Med Internet Res
PMCID: 5493784
PMID: 28623182
DOI: 10.2196/jmir.6676

[…] s, compounds, phenotypes, expression levels, domains, sequences, and other data.Important efforts have also been devoted to contextualizing entities by connecting them to their network. For instance, FACTA+ [], Pubtator [], or PAML-IST [] return publications and their links to various biological entities such as compounds, drugs, enzymes, genes, diseases, symptoms, mutations, species, and others. […]


GWAS for serum galactose deficient IgA1 implicates critical genes of the O glycosylation pathway

PLoS Genet
PMCID: 5328405
PMID: 28187132
DOI: 10.1371/journal.pgen.1006609

[…] data across multiple tissue types[, ]. We utilized, automated MEDLINE text mining tools to assess network connectivity between genes residing in implicated GWAS loci, including GRAIL[], e-LiSe[], and FACTA+[]. We also interrogated all known protein-protein interaction networks for connectivity between candidate genes using the Disease Association Protein-Protein Link Evaluator (DAPPLE)[] and Prote […]


Molecular profiling of thyroid cancer subtypes using large scale text mining

BMC Med Genomics
PMCID: 4290788
PMID: 25521965
DOI: 10.1186/1755-8794-7-S3-S3

[…] entity recognizer and relation recognizer were applied to find relations between prostate cancer and genes []. Other relation finding tools can be applied to cancer related studies as well, including FACTA [], CoPub [], DigSee [] and OncoSearch (http://oncosearch.biopathway.org). Both FACTA and CoPub support searching for co-occurring biomedical concepts (genes/diseases), facilitated by indexing t […]


Large Scale Structure of a Network of Co Occurring MeSH Terms: Statistical Analysis of Macroscopic Properties

PLoS One
PMCID: 4090190
PMID: 25006672
DOI: 10.1371/journal.pone.0102188

[…] and interpretable knowledge. A plethora of applications have been developed exploiting co-occurrence for mining interesting patterns in biomedical resources (e.g., BITOLA , iHOP , AliBaba , EBIMed , FACTA , PLAN2L , STRING , LAITOR ).Analyzing big relational datasets requires innovative methodological approaches beyond the basic exploratory mining. Recent years have seen an increasing interest in […]


Event based text mining for biology and functional genomics

Brief Funct Genomics
PMCID: 4499874
PMID: 24907365
DOI: 10.1093/bfgp/elu015

[…] on of potential events or associations involving search terms. iHOP (http://www.ihop-net.org) [, ] highlights additional terms and verbs in sentences retrieved by searching for a gene (see ), whereas FACTA+ (http://www.nactem.ac.uk/facta/) [] calculates and visualises strengths of association between a search term and other important concepts (e.g. genes, diseases and chemical compounds), by findi […]


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FACTA+ institution(s)
School of Information Science, Japan Advanced Institute of Science and Technology (JAIST), Nomi, Japan;Department of Computer Science, The University of Tokyo, Tokyo, Japan; The National Centre for Text Mining (NaCTeM), The University of Manchester, Manchester, UK; School of Computer Science, The University of Manchester, Manchester, UK; Microsoft Research Asia, Beijing, China
FACTA+ funding source(s)
Supported by Biotechnology and Biological Sciences Research Council (BBSRC BB/G013160/1) and the UK Joint Information Systems Committee (JISC).

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