title: ChemEx: information extraction system for chemical data curation.
abstract: BACKGROUND
  Manual chemical data curation from publications is error-prone, time consuming, and hard to maintain up-to-date data sets. Automatic information extraction can be used as a tool to reduce these problems. Since chemical structures usually described in images, information extraction needs to combine structure image recognition and text mining together.
  
  
  RESULTS
  We have developed ChemEx, a chemical information extraction system. ChemEx processes both text and images in publications. Text annotator is able to extract compound, organism, and assay entities from text content while structure image recognition enables translation of chemical raster images to machine readable format. A user can view annotated text along with summarized information of compounds, organism that produces those compounds, and assay tests.
  
  
  CONCLUSIONS
  ChemEx facilitates and speeds up chemical data curation by extracting compounds, organisms, and assays from a large collection of publications. The software and corpus can be downloaded from http://www.biotec.or.th/isl/ChemEx.
authors.affiliation: Information Systems Laboratory, National Center for Genetic Engineering and Biotechnology (BIOTEC), 113 Thailand Science Park, Phaholyothin Road, Klong 1, Klong Luang, Pathumthani, Thailand.
authors.forename: Atima
authors.initials: A
authors.lastname: Tharatipyakul
authors.forename: Somrak
authors.initials: S
authors.lastname: Numnark
authors.forename: Duangdao
authors.initials: D
authors.lastname: Wichadakul
authors.forename: Supawadee
authors.initials: S
authors.lastname: Ingsriswang
mesh_terms: D057225:Data Mining / Q000379:methods*; D007256:Information Systems; D054852:Small Molecule Libraries / Q000737:chemistry*; D012984:Software
chemical_list: D054852:Small Molecule Libraries