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Series GSE163148 Query DataSets for GSE163148
Status Public on Jan 06, 2021
Title Robust parameter design of human induced pluripotent stem cell differentiation protocols defines lineage‐specific induction of anterior‐posterior gut tube endodermal cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Tissues and cells derived from pluripotent stem cells (PSC) are likely to become widely used in disease modeling, drug screening, and regenerative medicine. For these applications, the in vitro PSC differentiation process must be elaborately investigated and controlled to reliably obtain the desired end products. However, because traditional experimental methods, such as one factor at a time (OFAT) or brute-force approaches, are impractical for detailed screening of complex PSC cultivation conditions, more strategic and effective screening based on statistical design of experiments (DOE) ought to be indispensable. Among various DOE approaches, we regard robust parameter design (RPD) as particularly suited for differentiation protocol optimization due to its suitability for multi-factorial screening. We confirmed the adaptability of RPD for investigating human induced PSC (hiPSC) lineage specification toward anterior–posterior gut tube endodermal cells and clarified the contribution of each cell signaling pathway and the effect of cell signaling condition alteration on marker RNA expression levels, while increasing the efficiency of the screening in 243-fold (18 vs 4374) compared to that of a brute-force approach. Specific induction of anterior foregut, hepatic, pancreatic, or mid-hindgut cells was achieved using seven iPSC strains with the optimal culture protocols established on the basis of RPD analysis. RPD has the potential to enable efficient construction and optimization of PSC differentiation protocols, and its use is recommended from fundamental research to mass production of PSC-derived products.
Overall design mRNA expression profiles of iPSC-derived anterior foregut, pancreatic, hepatic, and mid-hindgut cells
Contributor(s) Sekine K, Yasui R, Yamaguchi K
Citation(s) 33400835
Submission date Dec 14, 2020
Last update date Jan 06, 2021
Contact name Keisuke Sekine
Organization name National Cancer Center Research Institute, Japan
Department Graduate School of Medicine
Lab Laboratory of Cancer Cell Systems
Street address 5-1-1 Tsukiji
City Chuo-ku
State/province Tokyo
ZIP/Postal code 104-0045
Country Japan
Platforms (1)
GPL17303 Ion Torrent Proton (Homo sapiens)
Samples (28)
GSM4972753 Ff01_AFG
GSM4972754 1383D6_AFG
GSM4972755 1231A3_AFG
BioProject PRJNA685108
SRA SRP297873

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Supplementary file Size Download File type/resource
GSE163148_CombineAlignments_CA.rpm.bcmatrix.txt.gz 2.1 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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