Protein NER Task

A Protein NER Task is a domain-specific named entity recognition task for protein mentions (or gene mentions).

• AKA: Gene Product Mention Recognition.
• Context:
  • It can be a part of a Biomedical NER Task.
  • It can support a Protein Mention Normalization Task.
  • It can be solved by a Protein NER System (that implements a Protein NER algorithm).
• Example(s):
  • a BioCreative Task that is an NER Task.
  • …
• Counter-Example(s):
  • a Person NER Task.
  • a Species NER Task.
  • a Toponym Recognition Task.
• See: Protein Mention Normalization.

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References

2005

• (Hanisch et al., 2005) ⇒ Daniel Hanisch, Katrin Fundel, Heinz-Theodor Mevissen, Ralf Zimmer, and Juliane Fluck. (2005). “Prominer: Rule-based protein and gene entity recognition." BMC Bioinformatics, 6 (Suppl 1), S14.
• (Leser & Hakenberg, 2005) ⇒ Ulf Leser, and Jörg Hakenberg. (2005). “What Makes a Gene Name? Named entity recognition in the biomedical literature." Briefings in Bioinformatics, 6(4).
• (Tanabe et al., 2005) ⇒ Lorraine Tanabe, Natalie Xie, Lynne H. Thom, Wayne Matten, and W. John Wilbur. (2005). “GENETAG: a tagged corpus for gene/protein named entity recognition.” In: BMC bioinformatics, 6(Suppl 1). doi:S3doi:10.1186/1471-2105-6-S1-S3
• (Cohen, 2005) ⇒ Aaron M. Cohen. (2005). “Unsupervised Gene/Protein Named Entity Normalization Using Automatically Extracted Dictionaries.” In: Proceedings of the ACL-ISMB Workshop on Linking Biological Literature, Ontologies and Databases.

1999

• (Mikheev et al., 1999) ⇒ Andrei Mikheev, Marc Moens, and Claire Grover. (1999). “Named Entity Recognition Without Gazetteers.” In: Proceedings of the ninth conference on European chapter of the Association for Computational Linguistics. doi:10.3115/977035.977037

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