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Status |
Public on Nov 29, 2024 |
Title |
The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [ATAC-seq] |
Organism |
Homo sapiens |
Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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Summary |
Induced pluripotent stem cells (iPSCs) technology offers great promise for scientific research and clinical applications. iPSCs can be generated from various cell types through different strategies. Two different pluripotent states, naive and primed, can be captured in vitro, corresponding to the pre- and post-implantation stages of in vivo development, respectively, with naive pluripotency being considered to possess better developmental potential. We can obtain naïve iPSCs and primed iPSCs through somatic cell reprogramming. Despite well-characterized transcriptional and epigenetic changes, the dynamic of the chromatin landscape during naïve and primed iPSC reprogramming is poorly understood, especially in humans. In this study, we applied ATAC-seq and RNA-seq to delineate the chromatin landscape in the human secondary reprogramming system towards naive and primed pluripotency. We identified several transcription factors and epigenetic factors which were crucial to reprogramming chromatin remodeling. We found that two isoforms of the same gene PRDM1, PRDM1α and PRDM1β, targeted different genomic loci to function in divergent roles during naive reprogramming. We proposed a cross-regulation model of PRDM1α and PRDM1β function. Together, this research highlights the diversity of the transcription factors in determining the chromatin landscape dynamics and regulating pluripotent cell fates.
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Overall design |
We collected reprogramming intermediates for RNA-seq and ATAC-seq.
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Contributor(s) |
Wang L, Zhou J, Guo M |
Citation missing |
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Submission date |
Feb 15, 2024 |
Last update date |
Nov 30, 2024 |
Contact name |
Liping Wang |
E-mail(s) |
wanglp13@gmail.com
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Organization name |
Tongji University
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Street address |
1239 Siping Road
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City |
Shanghai |
ZIP/Postal code |
200082 |
Country |
China |
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Platforms (1) |
GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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Samples (31)
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This SubSeries is part of SuperSeries: |
GSE255862 |
The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming |
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Relations |
BioProject |
PRJNA1077081 |