Dbchem A database query based solution for the chemical compound and drug name recognition task

Date

2013-10-03

Author

Ata, Çağlar
Can, Tolga

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We propose a method, named DBCHEM, based on database queries for the chemical compound and drug name recognition task of the BioCreative IV challenge. We prepared a database with 145 million entries containing compound and drug names, their synonyms, and molecular formulas. PubChem Power User Gateway (PUG) system is used to construct the database. Candidate chemical and drug names are identified by using an English dictionary as a list of stop words. All candidates are queried in the compound database. We integrated a small number of heuristic rules into this query based approach. DBCHEM attained 58% precision and 71% recall on the development set with a total running time of 14 minutes for 3500 articles.

URI

http://www.biocreative.org/resources/publications/chemdner-proceed-publications/
https://hdl.handle.net/11511/81897

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Department of Computer Engineering, Conference / Seminar

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Citation Formats

Ç. Ata and T. Can, “Dbchem A database query based solution for the chemical compound and drug name recognition task,” 2013, vol. 2, Accessed: 00, 2021. [Online]. Available: http://www.biocreative.org/resources/publications/chemdner-proceed-publications/.