E-GEOD-45248 - Defining a molecular roadmap of cellular reprogramming into iPS Cells [DNA methylation]

Released on 18 March 2013, last updated on 4 May 2014
Mus musculus
Samples (10)
Array (1)
Protocols (6)
Factor-induced reprogramming of somatic cells into induced pluripotent stem cells (iPSCs) is inefficient, complicating mechanistic studies. Here, we examined defined intermediate cell populations poised to becoming iPSCs by genome-wide analyses. We show that induced pluripotency elicits two transcriptional waves, which are driven by c-Myc/Klf4 (first wave) and Oct4/Sox2/Klf4 (second wave). Cells that become refractory to reprogramming activate the first but fail to initiate the second transcriptional wave and can be rescued by elevated expression of all four factors. The establishment of bivalent domains occurs gradually after the first wave, whereas changes in DNA methylation take place after the second wave when cells acquire stable pluripotency. This integrative analysis allowed us to identify genes that act as roadblocks during reprogramming and surface markers that further enrich for cells prone to forming iPSCs. Collectively, our data offer new mechanistic insights into the nature and sequence of molecular events inherent to cellular reprogramming. DNA methylation profiles obtained at different timepoints during reprogramming of somatic cells: Day 0, +3, +6, +9 and iPSC
Experiment type
methylation profiling by array 
Ben S. Wittner <wittner.ben@mgh.harvard.edu>, Jose Polo, Konrad Hochedlinger, Maria E Figueroa
A molecular roadmap of reprogramming somatic cells into iPS cells. Polo JM, Anderssen E, Walsh RM, Schwarz BA, Nefzger CM, Lim SM, Borkent M, Apostolou E, Alaei S, Cloutier J, Bar-Nur O, Cheloufi S, Stadtfeld M, Figueroa ME, Robinton D, Natesan S, Melnick A, Zhu J, Ramaswamy S, Hochedlinger K. , Europe PMC 23260147
Investigation descriptionE-GEOD-45248.idf.txt
Sample and data relationshipE-GEOD-45248.sdrf.txt
Raw data (1)E-GEOD-45248.raw.1.zip
Processed data (1)E-GEOD-45248.processed.1.zip
Array designA-GEOD-10283.adf.txt