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Nature communications
07 23, 2021;12 (1): 4492.

Development of a quantitative prediction algorithm for target organ-specific similarity of human pluripotent stem cell-derived organoids and cells.

Mi-Ok Lee, Su-Gi Lee, Cho-Rok Jung, Ye Seul Son, Jae-Woon Ryu, Kwang Bo Jung, Jun-Ho Ahn, Jung-Hwa Oh, Hyang-Ae Lee, Jung Hwa Lim, Janghwan Kim, Insu Jang, Jinhyuk Choi, Jaeeun Jung, Kunhyang Park, Byungwook Lee, Dae-Soo Kim, Mi-Young Son, Hyun-Soo Cho
Author Information
  1. Mi-Ok Lee: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  2. Su-Gi Lee: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  3. Cho-Rok Jung: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  4. Ye Seul Son: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  5. Jae-Woon Ryu: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  6. Kwang Bo Jung: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  7. Jun-Ho Ahn: Korea Institute of Toxicology (KIT), Daejeon, Republic of Korea.
  8. Jung-Hwa Oh: Korea Institute of Toxicology (KIT), Daejeon, Republic of Korea. ORCID
  9. Hyang-Ae Lee: Korea Institute of Toxicology (KIT), Daejeon, Republic of Korea. ORCID
  10. Jung Hwa Lim: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  11. Janghwan Kim: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea. ORCID
  12. Insu Jang: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  13. Jinhyuk Choi: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  14. Jaeeun Jung: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  15. Kunhyang Park: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  16. Byungwook Lee: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.
  17. Dae-Soo Kim: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea. kds2465@kribb.re.kr. ORCID
  18. Mi-Young Son: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea. myson@kribb.re.kr. ORCID
  19. Hyun-Soo Cho: Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea. chohs@kribb.re.kr. ORCID
PMID: 34301945 DOI: 10.1038/s41467-021-24746-w

Abstract

Human pluripotent stem cell (hPSC)-derived organoids and cells have similar characteristics to human organs and tissues. Thus, in vitro human organoids and cells serve as a superior alternative to conventional cell lines and animal models in drug development and regenerative medicine. For a simple and reproducible analysis of the quality of organoids and cells to compensate for the shortcomings of existing experimental validation studies, a quantitative evaluation method should be developed. Here, using the GTEx database, we construct a quantitative calculation system to assess similarity to the human organs. To evaluate our system, we generate hPSC-derived organoids and cells, and detected organ similarity. To facilitate the access of our system by researchers, we develop a web-based user interface presenting similarity to the appropriate organs as percentages. Thus, this program could provide valuable information for the generation of high-quality organoids and cells and a strategy to guide proper lineage-oriented differentiation.

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MeSH Term

Algorithms
Cell Culture Techniques
Cell Differentiation
Cell Line
Gene Expression Profiling
Humans
Organ Specificity
Organoids
Pluripotent Stem Cells
RNA-Seq
Reverse Transcriptase Polymerase Chain Reaction
Transcriptome
Journal Article Research Support, Non-U.S. Gov't
Article has an altmetric score of 19

Word Cloud

Created with Highcharts 10.0.0organoidscellshumansimilarityorgansquantitativesystempluripotentstemcellThusHumanhPSC-derivedsimilarcharacteristicstissuesvitroservesuperioralternativeconventionallinesanimalmodelsdrugdevelopmentregenerativemedicinesimplereproducibleanalysisqualitycompensateshortcomingsexistingexperimentalvalidationstudiesevaluationmethoddevelopedusingGTExdatabaseconstructcalculationassessevaluategeneratehPSC-deriveddetectedorganfacilitateaccessresearchersdevelopweb-baseduserinterfacepresentingappropriatepercentagesprogramprovidevaluableinformationgenerationhigh-qualitystrategyguideproperlineage-orienteddifferentiationDevelopmentpredictionalgorithmtargetorgan-specificcell-derived

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