PT  - JOURNAL ARTICLE
AU  - Koichiro Nishino
AU  - Yoshikazu Arai
AU  - Ken Takasawa
AU  - Masashi Toyoda
AU  - Mayu Yamazaki-Inoue
AU  - Tohru Sugawara
AU  - Hidenori Akutsu
AU  - Ken Nishimura
AU  - Manami Ohtaka
AU  - Mahito Nakanishi
AU  - Akihiro Umezawa
TI  - Epigenetic-scale comparison of human iPSCs generated by retrovirus, Sendai virus or episomal vectors
AID  - 10.1101/355099
DP  - 2018 Jan 01
TA  - bioRxiv
PG  - 355099
4099  - http://biorxiv.org/content/early/2018/06/25/355099.short
4100  - http://biorxiv.org/content/early/2018/06/25/355099.full
AB  - Human induced pluripotent stem cells (iPSCs) are established by introducing several reprogramming factors, such as OCT3/4, SOX2, KLF4, c-MYC. Because of their pluripotency and immortality, iPSCs are considered to be a powerful tool for regenerative medicine. To date, iPSCs have been established all over the world by various gene delivery methods. All methods induced high-quality iPSCs, but epigenetic analysis of abnormalities derived from differences in the gene delivery methods has not yet been performed. Here, we generated genetically matched human iPSCs from menstrual blood cells by using three kinds of vectors, i.e., retrovirus, Sendai virus, and episomal vectors, and compared genome-wide DNA methylation profiles among them. Although comparison of aberrant methylation revealed that iPSCs generated by Sendai virus vector have lowest number of aberrant methylation sites among the three vectors, the iPSCs generated by non-integrating methods did not show vector-specific aberrant methylation. However, the differences between the iPSC lines were determined to be the number of random aberrant hyper-methylated regions compared with embryonic stem cells. These random aberrant hyper-methylations might be a cause of the differences in the properties of each of the iPSC lines.