Identifying bacterial biotope entities using sequence labeling: Performance and feature analysis.
Habitat information is important to biodiversity conservation and research. Extracting bacterial biotope entities from scientific publications is important to large scale study of the relationships between bacteria and their living environments. To facilitate the further development of robust habita...
| Publicado en: | Journal of the Association for Information Science & Technology Vol. 69; no. 9; pp. 1134 - 1148 |
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| Autores principales: | , |
| Formato: | equations & formulas research tables/charts Journal Article |
| Publicado: |
Wiley-Blackwell
Sep2018
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| Acceso en línea: | Ver este registro en EBSCOhost |
| fields | @attributes: recordID: 1 pdfLink: plink: https://search.ebscohost.com/login.aspx?direct=true&db=ccm&AN=131499571&site=ehost-live header: @attributes: shortDbName: ccm uiTerm: 131499571 longDbName: CINAHL Complete uiTag: AN controlInfo: bkinfo: dissinfo: jinfo: jid: 23301635 H6JN jtl: Journal of the Association for Information Science & Technology issn: 23301635 maglogo: N pubinfo: dt: Sep2018 vid: 69 iid: 9 pid: 480 pub: Wiley-Blackwell place: Malden, Massachusetts artinfo: ui: 131499571 131499571 131499571 10.1002/asi.24032 131499571 ppf: 1134 ppct: 14 formats: tig: atl: Identifying bacterial biotope entities using sequence labeling: Performance and feature analysis. aug: au: Mao, Jin Cui, Hong affil: Center for Studies of Information Resources, Wuhan University, 299 Bayi St., Wuhan, Hubei Province, 430072, China sug: subj: Bacteria Data Mining Machine Learning Human Experimental Studies Funding Source ab: Habitat information is important to biodiversity conservation and research. Extracting bacterial biotope entities from scientific publications is important to large scale study of the relationships between bacteria and their living environments. To facilitate the further development of robust habitat text mining systems for biodiversity, following the BioNLP task framework, three sequence labeling techniques, CRFs (Conditional Random Fields), MEMM (Maximum Entropy Markov Model) and SVMhmm (Support Vector Machine) and one classifier, SVMmulticlass, are compared on their performance in identifying three types of bacterial biotope entities: bacteria, habitats and geographical locations. The effectiveness of a variety of basic word formation features, syntactic features, and semantic features are exploited and compared for the three sequence labeling methods. Experiments on two publicly available BioNLP collections show that, in addition to a WordNet feature, word embedding featured clusters (although not trained with the task‐specific corpus) consistently improve the performance for all methods on all entity types in both collections. Other features produce various results. Our results also show that when trained on limited corpora, Brown clusters resulted in better performance than word embedding clusters did. Further analysis suggests that the entity recognition performance can be greatly boosted through improving the accuracy of entity boundary identification. pubtype: Academic Journal doctype: equations & formulas research tables/charts Journal Article ougenre: Article language: English refInfo: holdings: @attributes: islocal: N |
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