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Series GSE54115 Query DataSets for GSE54115
Status Public on Jan 16, 2014
Title Aberrant DNA methylation reprogramming during iPS cell generation is dependent on the choice of reprogramming factors
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary 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.
Overall design 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
Contributor(s) De Carvalho DD, Batada NN
Citation(s) 25408883
Submission date Jan 15, 2014
Last update date Mar 22, 2019
Contact name Daniel De Carvalho
Organization name Ontario Cancer Institute
Street address 101 College Street, room 9-302
City Toronto
State/province ON
ZIP/Postal code M5G 1L7
Country Canada
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (18)
GSM1308261 genomic DNA from cultured cells_iPS OSKM1
GSM1308262 genomic DNA from cultured cells_iPS OSKM2
GSM1308263 genomic DNA from cultured cells_iPS OSKM3
BioProject PRJNA235202

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

Supplementary file Size Download File type/resource
GSE54115_RAW.tar 183.1 Mb (http)(custom) TAR
GSE54115_non_normalized.txt.gz 75.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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