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Series GSE181196 Query DataSets for GSE181196
Status Public on May 06, 2022
Title Bcl11b and Atoh8 binding on chromatin in MEFs
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Coordinated changes of cellular plasticity and cellular identity are critical for pluripotent reprogramming and oncogenic transformation. However, the sequences of cellular/molecular events that orchestrate these intermingled modifications have never been comparatively dissected. Here, we deconvoluted the cellular trajectories of reprogramming (via Oct4/Sox2/Klf4/c-Myc) and transformation (via Ras/c-Myc) at the single-cell resolution and revealed how the two processes intersect prior to bifurcate. This approach also led to identify the transcription factor (TF) Bcl11b as a broad-range regulator of cell fate changes, as well as a pertinent marker to capture early cellular intermediates that emerge simultaneously during reprogramming and transformation. Multi-omics characterization of these intermediates led to unveil a c-Myc/Atoh8/Sfrp1 regulatory axis that constrains rodent and human reprogramming but also cancer cell plasticity and neuron transdifferentiation. Mechanistically, we found that the TF Atoh8 restrains cellular plasticity, independently of cellular identity, by binding a specific enhancer network. This study provides insights into the partitioned control of cellular plasticity and identity for both regenerative and cancer biology.
Overall design ChIP-sequencing assay targeting the Atoh8 factor presenting an AM tag peptide or the endogenous Bcl11b transcription factor. As a control an empty AM tag pulldown as well as a whole cell extract input control has been also generated.
Contributor(s) Huyghe A, Furlan G, Schroeder J, Studer J, Mugnier F, De Matteo L, Wang J, Yu Y, Rama N, Gibert B, Kielbassa J, Wajda P, Gadot N, Brevet M, Siouda M, Mulligan P, Dante R, Liu P, Gronemeyer H, Mendoza-parra M, Lavial F
Citation(s) 36075976
Submission date Jul 30, 2021
Last update date Oct 04, 2022
Contact name Fabrice Lavial
Organization name CRCL
Street address 28 rue Laennec
City Lyon
ZIP/Postal code 69008
Country France
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (9)
GSM5492285 MEF cells - AM-empty_rep1
GSM5492286 MEF cells - AM-Atoh8_rep1
GSM5492287 MEF cells - input DNA
This SubSeries is part of SuperSeries:
GSE137050 The comparative roadmaps of reprogramming and transformation unveiled that cellular plasticity is broadly controlled by Bcl11b and Atoh8
BioProject PRJNA751042
SRA SRP330560

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SOFT formatted family file(s) SOFTHelp
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Supplementary file Size Download File type/resource
GSE181196_RAW.tar 1.4 Gb (http)(custom) TAR (of BEDGRAPH, TXT, XLS)
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Raw data are available in SRA
Processed data provided as supplementary file

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