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

Soojeong Ko; Sunghyeon Park; Seolwhan Oh; Yunseon Im; Surin Jung; Boyeon Choi; Jaeyoon Kim; Wona Choi; Inyoung Choi

doi:10.3233/SHTI230156

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

Soojeong Ko
, Sunghyeon Park
, Seolwhan Oh
, Yunseon Im
, Surin Jung
, Boyeon Choi
, Jaeyoon Kim
, Wona Choi
, Inyoung 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	Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023
Editors	Maria Hagglund, Madeleine Blusi, Stefano Bonacina, Lina Nilsson, Inge Cort Madsen, Sylvia Pelayo, Anne Moen, Arriel Benis, Lars Lindskold, Parisis Gallos
Publisher	IOS Press BV
Pages	392-393
Number of pages	2
ISBN (Electronic)	9781643683881
DOIs	https://doi.org/10.3233/SHTI230156
State	Published - 18 May 2023
Event	33rd Medical Informatics Europe Conference: Caring is Sharing - Exploiting the Value in Data for Health and Innovation, MIE2023 - Gothenburg, Sweden Duration: 22 May 2023 → 25 May 2023

Publication series

Name	Studies in Health Technology and Informatics
Volume	302
ISSN (Print)	0926-9630
ISSN (Electronic)	1879-8365

Conference

Conference	33rd Medical Informatics Europe Conference: Caring is Sharing - Exploiting the Value in Data for Health and Innovation, MIE2023
Country/Territory	Sweden
City	Gothenburg
Period	22/05/23 → 25/05/23

Bibliographical note

Publisher Copyright:
© 2023 European Federation for Medical Informatics (EFMI) and IOS Press.

UN SDGs

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

SDG 3 Good Health and Well-being

Keywords

BioBank System
NLP

Access to Document

10.3233/SHTI230156

Cite this

Ko, S., Park, S., Oh, S., Im, Y., Jung, S., Choi, B., Kim, J., Choi, W., & Choi, I. (2023). Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. In M. Hagglund, M. Blusi, S. Bonacina, L. Nilsson, I. C. Madsen, S. Pelayo, A. Moen, A. Benis, L. Lindskold, & P. Gallos (Eds.), Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023 (pp. 392-393). (Studies in Health Technology and Informatics; Vol. 302). IOS Press BV. https://doi.org/10.3233/SHTI230156

Ko, Soojeong ; Park, Sunghyeon ; Oh, Seolwhan et al. / Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023. editor / Maria Hagglund ; Madeleine Blusi ; Stefano Bonacina ; Lina Nilsson ; Inge Cort Madsen ; Sylvia Pelayo ; Anne Moen ; Arriel Benis ; Lars Lindskold ; Parisis Gallos. IOS Press BV, 2023. pp. 392-393 (Studies in Health Technology and Informatics).

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title = "Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network",

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.",

keywords = "BioBank System, NLP",

author = "Soojeong Ko and Sunghyeon Park and Seolwhan Oh and Yunseon Im and Surin Jung and Boyeon Choi and Jaeyoon Kim and Wona Choi and Inyoung Choi",

note = "Publisher Copyright: {\textcopyright} 2023 European Federation for Medical Informatics (EFMI) and IOS Press.; 33rd Medical Informatics Europe Conference: Caring is Sharing - Exploiting the Value in Data for Health and Innovation, MIE2023 ; Conference date: 22-05-2023 Through 25-05-2023",

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doi = "10.3233/SHTI230156",

language = "English",

series = "Studies in Health Technology and Informatics",

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Ko, S, Park, S, Oh, S, Im, Y, Jung, S, Choi, B, Kim, J, Choi, W & Choi, I 2023, Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. in M Hagglund, M Blusi, S Bonacina, L Nilsson, IC Madsen, S Pelayo, A Moen, A Benis, L Lindskold & P Gallos (eds), Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023. Studies in Health Technology and Informatics, vol. 302, IOS Press BV, pp. 392-393, 33rd Medical Informatics Europe Conference: Caring is Sharing - Exploiting the Value in Data for Health and Innovation, MIE2023, Gothenburg, Sweden, 22/05/23. https://doi.org/10.3233/SHTI230156

Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. / Ko, Soojeong; Park, Sunghyeon; Oh, Seolwhan et al.
Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023. ed. / Maria Hagglund; Madeleine Blusi; Stefano Bonacina; Lina Nilsson; Inge Cort Madsen; Sylvia Pelayo; Anne Moen; Arriel Benis; Lars Lindskold; Parisis Gallos. IOS Press BV, 2023. p. 392-393 (Studies in Health Technology and Informatics; Vol. 302).

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

TY - GEN

T1 - Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network

AU - Ko, Soojeong

AU - Park, Sunghyeon

AU - Oh, Seolwhan

AU - Im, Yunseon

AU - Jung, Surin

AU - Choi, Boyeon

AU - Kim, Jaeyoon

AU - Choi, Wona

AU - Choi, Inyoung

PY - 2023/5/18

Y1 - 2023/5/18

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

UR - https://www.scopus.com/pages/publications/85159756262

U2 - 10.3233/SHTI230156

DO - 10.3233/SHTI230156

M3 - Conference contribution

C2 - 37203701

AN - SCOPUS:85159756262

T3 - Studies in Health Technology and Informatics

SP - 392

EP - 393

BT - Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023

A2 - Hagglund, Maria

A2 - Blusi, Madeleine

A2 - Bonacina, Stefano

A2 - Nilsson, Lina

A2 - Madsen, Inge Cort

A2 - Pelayo, Sylvia

A2 - Moen, Anne

A2 - Benis, Arriel

A2 - Lindskold, Lars

A2 - Gallos, Parisis

PB - IOS Press BV

T2 - 33rd Medical Informatics Europe Conference: Caring is Sharing - Exploiting the Value in Data for Health and Innovation, MIE2023

Y2 - 22 May 2023 through 25 May 2023

ER -

Ko S, Park S, Oh S, Im Y, Jung S, Choi B et al. Text Extraction and Standardization System Development for Pathological Records in the Korea Biobank Network. In Hagglund M, Blusi M, Bonacina S, Nilsson L, Madsen IC, Pelayo S, Moen A, Benis A, Lindskold L, Gallos P, editors, Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023. IOS Press BV. 2023. p. 392-393. (Studies in Health Technology and Informatics). doi: 10.3233/SHTI230156

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

Abstract

Publication series

Conference

Bibliographical note

UN SDGs

Keywords

Access to Document

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