Genomics

Dataset Information

297

The developmental potential of iPSCs is greatly influenced by the selection of the reprogramming factors


ABSTRACT: Induced pluripotent stem cells (iPSCs) are commonly generated by transduction of Oct4, Sox2, Klf4 and Myc (OSKM) into somatic cells. Though iPSCs are pluripotent, they frequently exhibit high variation in their quality as measured by chimera contribution and tetraploid (4n) complementation. Thus, improving the quality of iPSCs is an indispensable prerequisite for future iPSC-based therapy. Here we show that one major determinant for iPSCs quality is the combination of reprograming factor selected. Ectopic expression of Sall4, Nanog, Esrrb and Lin28 (SNEL) in MEFs efficiently generated high quality iPSCs as compared to other combinations of factors. SNEL-iPSCs produced approximately 5 times more efficiently “all-iPSC” mice compared to OSKM-iPSCs. While differentially methylated regions, transcript number of master regulators, establishment of ESC-specific super enhancers, and global aneuploidy were comparable between the lines, aberrant expression of 1,765 genes, trisomy of chromosome 8 and abnormal H2A.X deposition were frequently observed in poor quality OSK-iPSCs and OSKM-iPSCs. ChIP-Seq for Med1 in reprogrammed and partially reprogrammed mouse embryonic stem cell lines and corresponding controls

ORGANISM(S): Mus musculus  

SUBMITTER: Andrew Xiao   Batool Akhtar-Zaidi  Joseph R Ecker  Yosef Buganim  Malkiel Cohen  Richard A Young  Sovan Sarkar  Matthew D Schultz  Brian J Abraham  Dina Faddah  Rudolf Jaenisch  Linyu Shi  Peter M Lansdorp  Yupeng He  David Porubsky  Heather Hoke  Elisabeth Kulenkampff  Niek van Wiemartschen  Joseph R Nery  Kibibi Ganz  Qing Gao  Tao Wu  Styliana Markoulaki  Johanna Goldmann 

PROVIDER: E-GEOD-59569 | ArrayExpress | 2014-07-30

SECONDARY ACCESSION(S): GSE59569SRP044638PRJNA255647

REPOSITORIES: GEO, ArrayExpress, ENA

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