Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network

Soo Jeong Ko; Sunghyeon Park; Seol Whan Oh; Yun Seon Im; Surin Jung; Bo Yeon Choi; Jaeyoon Kim; Wona Choi; In Young Choi

doi:10.3233/SHTI231234

Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network

Soo Jeong Ko, Sunghyeon Park, Seol Whan Oh, Yun Seon Im, Surin Jung, Bo Yeon Choi, Jaeyoon Kim, Wona Choi, In Young Choi

Department of Medical Informatics

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Abstract

In Korea, the Korea Centers for Disease Control and Prevention operates the Korea BioBank Network (KBN). KBN has pathological records that collected in Korea and it is useful dataset for research. In this study, we established system that time efficient and reduced error by step-by-step data extraction process from KBN pathological records. We tested the extraction process by 769 lung cancer cohorts and 1292 breast cancer cohorts and accuracy is 91%. We expect this system can be used to efficiently process data from multiple institutions, including Korea BioBank Network.

Original language	English
Title of host publication	MEDINFO 2023 - The Future is Accessible
Subtitle of host publication	Proceedings of the 19th World Congress on Medical and Health Informatics
Editors	Jen Bichel-Findlay, Paula Otero, Philip Scott, Elaine Huesing
Publisher	IOS Press BV
Pages	1440-1441
Number of pages	2
ISBN (Electronic)	9781643684567
DOIs	https://doi.org/10.3233/SHTI231234
State	Published - 25 Jan 2024
Event	19th World Congress on Medical and Health Informatics, MedInfo 2023 - Sydney, Australia Duration: 8 Jul 2023 → 12 Jul 2023

Publication series

Name	Studies in Health Technology and Informatics
Volume	310
ISSN (Print)	0926-9630
ISSN (Electronic)	1879-8365

Conference

Conference	19th World Congress on Medical and Health Informatics, MedInfo 2023
Country/Territory	Australia
City	Sydney
Period	8/07/23 → 12/07/23

Bibliographical note

Publisher Copyright:
© 2024 International Medical Informatics Association (IMIA) and IOS Press.

Keywords

biobank system
NLP

UN SDGs

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

Access to Document

10.3233/SHTI231234

Cite this

Ko, S. J., Park, S., Oh, S. W., Im, Y. S., Jung, S., Choi, B. Y., Kim, J., Choi, W., & Choi, I. Y. (2024). Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. In J. Bichel-Findlay, P. Otero, P. Scott, & E. Huesing (Eds.), MEDINFO 2023 - The Future is Accessible: Proceedings of the 19th World Congress on Medical and Health Informatics (pp. 1440-1441). (Studies in Health Technology and Informatics; Vol. 310). IOS Press BV. https://doi.org/10.3233/SHTI231234

Ko, Soo Jeong ; Park, Sunghyeon ; Oh, Seol Whan et al. / Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. MEDINFO 2023 - The Future is Accessible: Proceedings of the 19th World Congress on Medical and Health Informatics. editor / Jen Bichel-Findlay ; Paula Otero ; Philip Scott ; Elaine Huesing. IOS Press BV, 2024. pp. 1440-1441 (Studies in Health Technology and Informatics).

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abstract = "In Korea, the Korea Centers for Disease Control and Prevention operates the Korea BioBank Network (KBN). KBN has pathological records that collected in Korea and it is useful dataset for research. In this study, we established system that time efficient and reduced error by step-by-step data extraction process from KBN pathological records. We tested the extraction process by 769 lung cancer cohorts and 1292 breast cancer cohorts and accuracy is 91%. We expect this system can be used to efficiently process data from multiple institutions, including Korea BioBank Network.",

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author = "Ko, {Soo Jeong} and Sunghyeon Park and Oh, {Seol Whan} and Im, {Yun Seon} and Surin Jung and Choi, {Bo Yeon} and Jaeyoon Kim and Wona Choi and Choi, {In Young}",

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Ko, SJ, Park, S, Oh, SW, Im, YS, Jung, S, Choi, BY, Kim, J, Choi, W & Choi, IY 2024, Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. in J Bichel-Findlay, P Otero, P Scott & E Huesing (eds), MEDINFO 2023 - The Future is Accessible: Proceedings of the 19th World Congress on Medical and Health Informatics. Studies in Health Technology and Informatics, vol. 310, IOS Press BV, pp. 1440-1441, 19th World Congress on Medical and Health Informatics, MedInfo 2023, Sydney, Australia, 8/07/23. https://doi.org/10.3233/SHTI231234

Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. / Ko, Soo Jeong; Park, Sunghyeon; Oh, Seol Whan et al.
MEDINFO 2023 - The Future is Accessible: Proceedings of the 19th World Congress on Medical and Health Informatics. ed. / Jen Bichel-Findlay; Paula Otero; Philip Scott; Elaine Huesing. IOS Press BV, 2024. p. 1440-1441 (Studies in Health Technology and Informatics; Vol. 310).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

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AU - Jung, Surin

AU - Choi, Bo Yeon

AU - Kim, Jaeyoon

AU - Choi, Wona

AU - Choi, In Young

PY - 2024/1/25

Y1 - 2024/1/25

N2 - In Korea, the Korea Centers for Disease Control and Prevention operates the Korea BioBank Network (KBN). KBN has pathological records that collected in Korea and it is useful dataset for research. In this study, we established system that time efficient and reduced error by step-by-step data extraction process from KBN pathological records. We tested the extraction process by 769 lung cancer cohorts and 1292 breast cancer cohorts and accuracy is 91%. We expect this system can be used to efficiently process data from multiple institutions, including Korea BioBank Network.

AB - In Korea, the Korea Centers for Disease Control and Prevention operates the Korea BioBank Network (KBN). KBN has pathological records that collected in Korea and it is useful dataset for research. In this study, we established system that time efficient and reduced error by step-by-step data extraction process from KBN pathological records. We tested the extraction process by 769 lung cancer cohorts and 1292 breast cancer cohorts and accuracy is 91%. We expect this system can be used to efficiently process data from multiple institutions, including Korea BioBank Network.

KW - biobank system

KW - NLP

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A2 - Bichel-Findlay, Jen

A2 - Otero, Paula

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A2 - Huesing, Elaine

PB - IOS Press BV

T2 - 19th World Congress on Medical and Health Informatics, MedInfo 2023

Y2 - 8 July 2023 through 12 July 2023

ER -

Ko SJ, Park S, Oh SW, Im YS, Jung S, Choi BY et al. Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. In Bichel-Findlay J, Otero P, Scott P, Huesing E, editors, MEDINFO 2023 - The Future is Accessible: Proceedings of the 19th World Congress on Medical and Health Informatics. IOS Press BV. 2024. p. 1440-1441. (Studies in Health Technology and Informatics). doi: 10.3233/SHTI231234

Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network

Abstract

Publication series

Conference

Bibliographical note

Keywords

UN SDGs

Access to Document

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Cite this