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Series GSE134441 Query DataSets for GSE134441
Status Public on Jul 21, 2019
Title Error-free and error-prone DNA repair gene expression through reprogramming and passage in human iPS cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Medical applications of human iPS cells(hiPSC) are evolving, but detailed elucidation of the mechanisms of reprogramming remains to be elucidated. Reprogramming is accompanied by an increase in the expression of related genes that maintain pluripotency, such as OCT3 /4 and NANOG. Also, through reprogramming, many CNVs and point mutation arise in genomes, which constitute a major barrier to the use of hiPSC for regenerative medicine. On the other hand, we recently found that DNA repair-related genes expression are altered through reprogramming, elevated expression of genes that accurately convey genomic information, such as homologous recombination (HR) and mismatch repair(MMR), and decreased expression of error-prone translesion Synthesis polymerase(TLS). Here, we confirmed this expression change in another cell-line, and further found that this expression change was maintained by overlapping passages as well as OCT3 /4 and NANOG. This suggests that changes in the expression of DNA repair-related genes associated with reprogramming and their maintenance may be new indicators of the quality control of cells exhibiting pluripotency.
Overall design RNA-sequencing analyses were performed in two fibroblast cells and five its-derived induced pluripotent stem cells.
Contributor(s) Okuzaki D, Yoshimura Y
Citation(s) 32071995
Submission date Jul 17, 2019
Last update date Feb 20, 2020
Contact name Daisuke Okuzaki
Phone +81-6-6879-4935
Organization name Osaka univ.
Department Immunology Frontier Research Center
Lab Human Immunology (Single Cell Genomics)
Street address Yamadaoka 3-1
City Suita
State/province Osaka
ZIP/Postal code 565-0871
Country Japan
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (7)
GSM3948493 iPS-1(p31)
GSM3948494 iPS-2(p32)
GSM3948495 iPS-1(p53)
BioProject PRJNA555421
SRA SRP215540

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE134441_Dr.Yoshimura_7samples_FPKM_190716.xlsx 2.2 Mb (ftp)(http) XLSX
GSE134441_RAW.tar 1.0 Mb (http)(custom) TAR (of TXT)
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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