|
| 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.
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| |
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| 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
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| |
|
| 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 |
| E-mail(s) |
ddecarv@uhnresearch.ca
|
| 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 |
| |
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| Platforms (1) |
| GPL13534 |
Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482) |
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| 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 |
| GSM1308264 |
genomic DNA from cultured cells_iPS OSKM4 |
| GSM1308265 |
genomic DNA from cultured cells_iPS OSKM5 |
| GSM1308266 |
genomic DNA from cultured cells_iPS OSKM6 |
| GSM1308267 |
genomic DNA from cultured cells_iPS OSKM7 |
| GSM1308268 |
genomic DNA from cultured cells_iPS OSKM8 |
| GSM1308269 |
genomic DNA from cultured cells_iPS OSKM9 |
| GSM1308270 |
genomic DNA from cultured cells_iPS OSLN1 |
| GSM1308271 |
genomic DNA from cultured cells_iPS OSLN2 |
| GSM1308272 |
genomic DNA from cultured cells_iPS OSLN3 |
| GSM1308273 |
genomic DNA from cultured cells_iPS OSLN4 |
| GSM1308274 |
genomic DNA from cultured cells_iPS OSLN5 |
| GSM1308275 |
genomic DNA from cultured cells_iPS OSLN6 |
| GSM1308276 |
genomic DNA from cultured cells_hES2 |
| GSM1308277 |
genomic DNA from cultured cells_HFF_p17 |
| GSM1308278 |
genomic DNA from cultured cells_HFF_p23 |
|
| Relations |
| BioProject |
PRJNA235202 |
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