Enhancing the quality of hierarchic relations in the national cancer institute thesaurus to enable faceted query of cancer registry data

Licong Cui; Rashmie Abeysinghe; Fengbo Zheng; Shiqiang Tao; Ningzhou Zeng; Isaac Hands; Eric B. Durbin; Lori Whiteman; Lyubov Remennik; Nicholas Sioutos; Guo Qiang Zhang

doi:10.1200/CCI.19.00124

Enhancing the quality of hierarchic relations in the national cancer institute thesaurus to enable faceted query of cancer registry data

Licong Cui, Rashmie Abeysinghe, Fengbo Zheng, Shiqiang Tao, Ningzhou Zeng, Isaac Hands, Eric B. Durbin, Lori Whiteman, Lyubov Remennik, Nicholas Sioutos, Guo Qiang Zhang

Internal Medicine

Research output: Contribution to journal › Article › peer-review

3 Scopus citations

Abstract

PURPOSE To audit and improve the completeness of the hierarchic (or is-a) relations of the National Cancer Institute (NCI) Thesaurus to support its role as a faceted system for querying cancer registry data. METHODS We performed quality auditing of the 19.01d version of the NCI Thesaurus. Our hybrid auditing method consisted of three main steps: computing nonlattice subgraphs, constructing lexical features for concepts in each subgraph, and performing subsumption reasoning with each subgraph to automatically suggest potentially missing is-a relations. RESULTS A total of 9,512 nonlattice subgraphs were obtained. Our method identified 925 potentially missing is-a relations in 441 nonlattice subgraphs; 72 of 176 reviewed samples were confirmed as valid missing is-a relations and have been incorporated in the newer versions of the NCI Thesaurus. CONCLUSION Autosuggested changes resulting from our auditing method can improve the structural organization of the NCI Thesaurus in supporting its new role for faceted query.

Original language	English
Pages (from-to)	392-398
Number of pages	7
Journal	JCO clinical cancer informatics
Volume	4
DOIs	https://doi.org/10.1200/CCI.19.00124
State	Published - 2020

Bibliographical note

Funding Information:
Supported by the National Science Foundation through Grant No. IIS7-1931134 and the National Cancer Institute, National Institutes of Health, through Grant No. R21CA231904.

Publisher Copyright:
© 2020 by American Society of Clinical Oncology Licensed under the Creative Commons Attribution 4.0 License

ASJC Scopus subject areas

Oncology
Health Informatics
Cancer Research

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1200/CCI.19.00124

Cite this

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title = "Enhancing the quality of hierarchic relations in the national cancer institute thesaurus to enable faceted query of cancer registry data",

abstract = "PURPOSE To audit and improve the completeness of the hierarchic (or is-a) relations of the National Cancer Institute (NCI) Thesaurus to support its role as a faceted system for querying cancer registry data. METHODS We performed quality auditing of the 19.01d version of the NCI Thesaurus. Our hybrid auditing method consisted of three main steps: computing nonlattice subgraphs, constructing lexical features for concepts in each subgraph, and performing subsumption reasoning with each subgraph to automatically suggest potentially missing is-a relations. RESULTS A total of 9,512 nonlattice subgraphs were obtained. Our method identified 925 potentially missing is-a relations in 441 nonlattice subgraphs; 72 of 176 reviewed samples were confirmed as valid missing is-a relations and have been incorporated in the newer versions of the NCI Thesaurus. CONCLUSION Autosuggested changes resulting from our auditing method can improve the structural organization of the NCI Thesaurus in supporting its new role for faceted query.",

author = "Licong Cui and Rashmie Abeysinghe and Fengbo Zheng and Shiqiang Tao and Ningzhou Zeng and Isaac Hands and Durbin, {Eric B.} and Lori Whiteman and Lyubov Remennik and Nicholas Sioutos and Zhang, {Guo Qiang}",

note = "Funding Information: Supported by the National Science Foundation through Grant No. IIS7-1931134 and the National Cancer Institute, National Institutes of Health, through Grant No. R21CA231904. Publisher Copyright: {\textcopyright} 2020 by American Society of Clinical Oncology Licensed under the Creative Commons Attribution 4.0 License",

year = "2020",

doi = "10.1200/CCI.19.00124",

language = "English",

volume = "4",

pages = "392--398",

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T1 - Enhancing the quality of hierarchic relations in the national cancer institute thesaurus to enable faceted query of cancer registry data

AU - Cui, Licong

AU - Abeysinghe, Rashmie

AU - Zheng, Fengbo

AU - Tao, Shiqiang

AU - Zeng, Ningzhou

AU - Hands, Isaac

AU - Durbin, Eric B.

AU - Whiteman, Lori

AU - Remennik, Lyubov

AU - Sioutos, Nicholas

AU - Zhang, Guo Qiang

N1 - Funding Information: Supported by the National Science Foundation through Grant No. IIS7-1931134 and the National Cancer Institute, National Institutes of Health, through Grant No. R21CA231904. Publisher Copyright: © 2020 by American Society of Clinical Oncology Licensed under the Creative Commons Attribution 4.0 License

PY - 2020

Y1 - 2020

N2 - PURPOSE To audit and improve the completeness of the hierarchic (or is-a) relations of the National Cancer Institute (NCI) Thesaurus to support its role as a faceted system for querying cancer registry data. METHODS We performed quality auditing of the 19.01d version of the NCI Thesaurus. Our hybrid auditing method consisted of three main steps: computing nonlattice subgraphs, constructing lexical features for concepts in each subgraph, and performing subsumption reasoning with each subgraph to automatically suggest potentially missing is-a relations. RESULTS A total of 9,512 nonlattice subgraphs were obtained. Our method identified 925 potentially missing is-a relations in 441 nonlattice subgraphs; 72 of 176 reviewed samples were confirmed as valid missing is-a relations and have been incorporated in the newer versions of the NCI Thesaurus. CONCLUSION Autosuggested changes resulting from our auditing method can improve the structural organization of the NCI Thesaurus in supporting its new role for faceted query.

AB - PURPOSE To audit and improve the completeness of the hierarchic (or is-a) relations of the National Cancer Institute (NCI) Thesaurus to support its role as a faceted system for querying cancer registry data. METHODS We performed quality auditing of the 19.01d version of the NCI Thesaurus. Our hybrid auditing method consisted of three main steps: computing nonlattice subgraphs, constructing lexical features for concepts in each subgraph, and performing subsumption reasoning with each subgraph to automatically suggest potentially missing is-a relations. RESULTS A total of 9,512 nonlattice subgraphs were obtained. Our method identified 925 potentially missing is-a relations in 441 nonlattice subgraphs; 72 of 176 reviewed samples were confirmed as valid missing is-a relations and have been incorporated in the newer versions of the NCI Thesaurus. CONCLUSION Autosuggested changes resulting from our auditing method can improve the structural organization of the NCI Thesaurus in supporting its new role for faceted query.

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Enhancing the quality of hierarchic relations in the national cancer institute thesaurus to enable faceted query of cancer registry data

Abstract

Bibliographical note

ASJC Scopus subject areas

UN SDGs

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