Project description:This SuperSeries is composed of the following subset Series: GSE27134: DNA methylation data from human iPS cells, ES cells, cord blood, and keratinocytes GSE27186: Expression data of human somatic cell types and induced pluripotent stem cells GSE31742: DNA methylation data from human keratinocyte-derived iPS cells (N9) and ES cells Refer to individual Series
Project description:Genome-wide DNA methylation of early and late passaged keratinocyte-derived iPS cells were compared to ES cells. We used custom Nimblegen microarrays to determine the genome-wide DNA methylation in human keratinocyte-derived iPS cells and ES cells
Project description:Genome-wide DNA methylation of early and late passaged keratinocyte-derived iPS cells were compared to ES cells. We used custom Nimblegen microarrays to determine the genome-wide DNA methylation in human keratinocyte-derived iPS cells and ES cells We isolated genomic DNA from human stem cells and somatic cells and hybridized to custom-designed Nimblegen microarrays (CHARM arrays).
Project description:Genome-wide DNA methylation was studied to determine whether iPS cells retain epigenetic memory at loci associated with its tissue of origin. We used custom Nimblegen microarrays to determine the genome-wide DNA methylation in human iPS cells, ES cells, and somatic cells
Project description:we generate iPSCs from a common fibroblast cell source using either the Yamanaka factors (OCT4, SOX2, KLF4 and MYC) or the Thomson factors (OCT4, SOX2, NANOG and LIN28) and determined their genome-wide DNA methylation profiles. In addition to shared DNA methylation aberrations present in all our iPSCs, we identify Yamanaka-iPSC (Y-iPSCs)-specific and Thomson-iPSCs (T-iPSC)-specific recurrent aberrations. Bisulphite converted DNA from 9 iPS cells derived using Yamanaka factors (OSKM), 6 iPS cells derived using Thompson factors (OSLN), 2 parental fibroblasts and one embrionic ES cell were hybridised to the Illumina Infinium 450k Human Methylation Beadchip
Project description:The developmental potential of human pluripotent stem cells suggests that they can produce disease-relevant cell types for biomedical research. However, substantial variation has been reported among pluripotent cell lines, which could affect their utility and clinical safety. Such cell-line specific differences must be better understood before one can confidently use embryonic stem (ES) or induced pluripotent stem (iPS) cells in translational research. Towards this goal we have established genome-wide reference maps of DNA methylation and gene expression for 20 previously derived human ES lines and 12 human iPS cell lines, and we have measured the in vitro differentiation propensity of these cell lines. This resource enabled us to assess the epigenetic and transcriptional similarity of ES and iPS cells and to predict the differentiation efficiency of individual cell lines. The combination of assays yields a scorecard for quick and comprehensive characterization of pluripotent cell lines. We used microarrays to compare the gene expression profiles between human ES cell lines, iPS cell lines, fibroblasts and embryoid bodies, and to identify cell-line specific outlier genes.
Project description:This SuperSeries is composed of the following subset Series: GSE26451: Transcriptome data for human ES, FORESKIN and FORESKIN-derived iPS (ES4SKIN) cells GSE26453: Transcriptome data for human ES, IMR90 and IMR90-derived iPS (ESIMR90) cells Refer to individual Series
