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Table 3 Freely available corpora for training and evaluating text-mining tools in the biological domain

From: What the papers say: Text mining for genomics and systems biology

Corpus

Location

Task

AIMed

ftp://ftp.cs.utexas.edu/pub/mooney/bio-data/

REL

BioCreative I GM

http://sourceforge.net/projects/biocreative/files/

GM

BioCreative Ib

http://sourceforge.net/projects/biocreative/files/

GN

BioCreative II GM

http://sourceforge.net/projects/biocreative/files/

GM

BioCreative II GN

http://sourceforge.net/projects/biocreative/files/

GN

BioCreative II FT

http://sourceforge.net/projects/biocreative/files/

REL

BioInfer [48]

http://www.it.utu.fi/BioInfer/

REL

DECA [49]

http://www.nactem.ac.uk/deca_details/start.cgi

SD

LINNAEAUS [34]

http://linnaeus.sourceforge.net/

SM/SN

  1. Task refers to the tool training/evaluation use of the corpus. Abbreviations: GM, gene mention (NER); GN, gene normalisation; REL, relationship extraction; SD, species; SM, species mention (NER); SN, species normalisation
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Human Genomics

ISSN: 1479-7364