ENAapplication/xmlftp.sra.ebi.ac.uk/vol1/fastq/SRR191/001/SRR1917591/SRR1917591_2.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/004/SRR1917594/SRR1917594_1.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/002/SRR1917592/SRR1917592_2.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/000/SRR1917590/SRR1917590_2.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/003/SRR1917593/SRR1917593_1.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/009/SRR1917589/SRR1917589_1.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/001/SRR1917591/SRR1917591_1.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/004/SRR1917594/SRR1917594_2.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/002/SRR1917592/SRR1917592_1.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/000/SRR1917590/SRR1917590_1.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/009/SRR1917589/SRR1917589_2.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR191/003/SRR1917593/SRR1917593_2.fastq.gzprimaryOK2000000GenomicsNatalia Tapia Lab, Institute for Stem Cell Research and Regenerative Medicine, Heinrich Heine University Duesseldorfhttps://www.ebi.ac.uk/ena/browser/view/PRJNA278745Mus musculusSomatic cells can be reprogrammed to pluripotency using different methods. In comparison to pluripotent cells obtained through somatic nuclear transfer, induced pluripotent stem cells (iPSCs) exhibit a higher number of epigenetic errors. Furthermore, most of these abnormalities have been described to be intrinsic to the iPSC technology. Here we investigate whether the aberrant epigenetic patterns detected in iPSCs are specific to transcription factor-mediated reprogramming. We used germline stem cells (GSCs), which are the only adult cell type that can be converted into pluripotent cells (gPSCs) under specific culture conditions, and compared GSC-derived iPSCs and gPSCs at the transcriptomic, epigenetic and functional level. Our results show that both reprogramming methods generate indistinguishable states of pluripotency. GSC-derived iPSCs and gPSCs retained similar levels of donor cell-type memory and exhibited comparable numbers of reprogramming errors. Therefore, our study demonstrates that the epigenetic memory detected in iPSCs is not intrinsic to transcription factor-mediated reprogramming. Overall design: Total DNA treated for Reduced Representation Bisulfite Sequencing (RRBSeq) from 6 different in vitro mouse cell lines: germline stem cells (GSCs), GSC-derived induced pluripotent stem cells (iPSCs, 2 independent cell lines), germline-derived pluripotent stem cells (gPSCs, 2 independent cell lines), embryonic stem cells (ESCs)ENAF14P3.4, transcription factor, RNA polymerase II core promoter proximal region sequence-specific binding, T-cell leukemia, Epigenetic, copper ion regulated core promoter proximal region sequence-specific binding., AGL4, F14P3_4, F10N7_150, zinc ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, homeobox 1, SEPALLATA 2, sequence-specific DNA binding RNA polymerase II transcription factor activity, metal ion regulated core promoter proximal region sequence-specific binding, metal ion regulated sequence-specific DNA binding RNA polymerase II transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity, Transcription factor, F10N7.150, Epigenomic, transcription factor activity, zinc ion regulated core promoter proximal region sequence-specific DNA binding, RNA polymerase II proximal promoter sequence-specific DNA binding, copper ion regulated proximal promoter sequence-specific DNA binding, RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity, AGAMOUS-like 4, copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, RNA polymerase II transcription factor activity, zinc ion regulated proximal promoter sequence-specific DNA binding, sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity, sequence-specific DNA binding, sequence-specific distal enhancer binding RNA polymerase II transcription factor activity, Epigenetics, metal ion regulated sequence-specific DNA binding, metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, KNOTTED1-like homeobox gene 5, metal ion regulated proximal promoter sequence-specific DNA binding, TRANSCRIPTION FACTOR, Intrinsic, sequence-specific transcription regulatory region DNA binding, RNA polymerase II distal enhancer sequence-specific bindingmouse, mouse <Mus musculus>, house mouse.0.00.00.00.00.00falseMus musculusEpigenetic Memory Is Not Intrinsic To Transcription Factor-Mediated Reprogramming [Bisulfite-Seq]2022-07-192015-03-20PRJNA278745GSE6702510090