TY - JOUR AU - Tsai, Richard Tzong-Han AU - Wu, Shih-Hung AU - Chou, Wen-Chi AU - Lin, Yu-Chun AU - He, Ding AU - Hsiang, Jieh AU - Sung, Ting-Yi AU - Hsu, Wen-Lian PY - 2006 DA - 2006/02/24 TI - Various criteria in the evaluation of biomedical named entity recognition JO - BMC Bioinformatics SP - 92 VL - 7 IS - 1 AB - Text mining in the biomedical domain is receiving increasing attention. A key component of this process is named entity recognition (NER). Generally speaking, two annotated corpora, GENIA and GENETAG, are most frequently used for training and testing biomedical named entity recognition (Bio-NER) systems. JNLPBA and BioCreAtIvE are two major Bio-NER tasks using these corpora. Both tasks take different approaches to corpus annotation and use different matching criteria to evaluate system performance. This paper details these differences and describes alternative criteria. We then examine the impact of different criteria and annotation schemes on system performance by retesting systems participated in the above two tasks. SN - 1471-2105 UR - https://doi.org/10.1186/1471-2105-7-92 DO - 10.1186/1471-2105-7-92 ID - Tsai2006 ER -