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E-GEOD-60816 - Reprogramming-associated aberrant DNA methylation determines hematopoietic differentiation capacity of human induced pluripotent stem cells [PSCusedfor_iPSDMRs_methylation]

Status
Released on 29 June 2016, last updated on 2 July 2016
Organism
Homo sapiens
Samples (6)
Array (1)
Protocols (6)
Description
The variation among induced pluripotent stem cells (iPSCs) in their differentiation capacity to specific lineages is frequently attributed to somatic memory. In this study, we compared hematopoietic differentiation capacity of 35 human iPSC lines derived from four different tissues and four embryonic stem cell lines. The analysis revealed that hematopoietic commitment capacity (PSCs to hematopoietic precursors) is correlated with the expression level of the IGF2 gene independent of the iPSC origins. In contrast, maturation capacity (hematopoietic precursors to mature blood) is affected by iPSC origin; blood-derived iPSCs showed the highest capacity. However, some fibroblast-derived iPSCs showed higher capacity than blood-derived clones. Tracking of DNA methylation changes during reprogramming reveals that maturation capacity is highly associated with aberrant DNA methylation acquired during reprogramming, rather than the types of iPSC origins. These data demonstrated that variations in the hematopoietic differentiation capacity of iPSCs are not attributable to somatic memories of their origins. Bisulfite converted genomic DNA lysates from human pluripotent stem cell-derived hematopoietic precursor cells (CD34+CD38-CD43+ lineage marker-) were hybridized to Illumina HumanMethylation450 BeadChip.
Experiment type
methylation profiling by array 
Contacts
Yoshinori Yoshida <yoshinor@cira.kyoto-u.ac.jp>, Masatoshi Nishizawa, Shinya Yamanaka
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-60816.idf.txt
Sample and data relationshipE-GEOD-60816.sdrf.txt
Processed data (1)E-GEOD-60816.processed.1.zip
Additional data (1)E-GEOD-60816.additional.1.zip
Array designA-GEOD-13534.adf.txt
Links