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

• Published in: Nature communications Vol. 12; no. 1; p. 4492
• Main Authors: Lee, Mi-Ok, Lee, Su-gi, Jung, Cho-Rok, Son, Ye Seul, Ryu, Jae-Woon, Jung, Kwang Bo, Ahn, Jun-Ho, Oh, Jung-Hwa, Lee, Hyang-Ae, Lim, Jung Hwa, Kim, Janghwan, Jang, Insu, Choi, Jinhyuk, Jung, Jaeeun, Park, Kunhyang, Lee, Byungwook, Kim, Dae-Soo, Son, Mi-Young, Cho, Hyun-Soo
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 23-07-2021; Nature Publishing Group; Nature Portfolio
• Subjects: 13/100; 14/1; 14/19; 14/34; 38/39; 38/91; 45/29; 631/114/2397; 631/1647/48; 631/1647/767; 631/532/2064; 639/705/1042; Algorithms; Animal models; Cardiomyocytes; Cell culture; Cell lines; Drug development; Human performance; Humanities and Social Sciences; multidisciplinary; Organoids; Organs; Pluripotency; Quality assessment; Quantitative analysis; Regenerative medicine; Science; Science (multidisciplinary); Similarity; Stem cells; Tissue engineering
• ISSN: 2041-1723; 2041-1723
• DOI: 10.1038/s41467-021-24746-w

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.
Quantitative methods to assess the quality of hPSC-derived organoids have not been developed. Here they present a prediction algorithm to assess the transcriptomic similarity between hPSC-derived organoids and the corresponding human target organs and perform validation on lung bud organoids, antral gastric organoids, and cardiomyocytes.