Open AccessAnnotating the Literature with Disease Ontology
Author(s) -
Yang Li,
Zhou Yanhong,
Zheng Ying
Publication year - 2017
Publication title -
chinese journal of electronics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.267
H-Index - 25
eISSN - 2075-5597
pISSN - 1022-4653
DOI - 10.1049/cje.2017.09.020
Subject(s) - computer science , biomedicine , crfs , normalization (sociology) , ontology , natural language processing , conditional random field , artificial intelligence , information retrieval , identification (biology) , similarity (geometry) , bioinformatics , image (mathematics) , philosophy , botany , epistemology , sociology , anthropology , biology
With the rapid growth of inquiry in biomedicine concerning diseases, the recognition of diseases becomes especially important. But only the recognition of the biomedical concepts in literature is not enough, annotations and normalizations of the concepts with normalized Metathesaurus get even more important. This paper proposes a system to annotate the literature with normalized Metathesaurus. First, a two‐phase Conditional random fields (CRFs) is used to recognize the disease mentions, including the location and identification. Then, the paper adapts the Disease ontology (DO) to annotate the diseases recognized for normalization by computing the similarity between disease mentions and concepts. According to the similarities, the disease mentions are denoted as disease concepts and instances distinctively. The experiments carried out on the Arizona disease corpus show that our system makes a good achievement and outperforms the other works.