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Series GSE243516 Query DataSets for GSE243516
Status Public on Jun 24, 2024
Title Rational cell fate engineering through chromatin dynamics [RNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Mechanism controlling cell fate remains elusive. Chromatin remodeling complex interacts with transcription factors to colocalize across the genome and regulate region-specific epigenetic environment. Here, we propose an engineering approach for controlling cell fate through chromatin closing and opening. We utilize chromatin remodeling complex, BAF, known to activate gene expression by opening chromatin loci. By grafting BAF interacting motifs onto Nanog, we show that engineering factors could promote somatic cell reprogramming with Oct4. Furthermore, mutation on the interacting motifs render iPSC generation. The syntactic factors facilitate cell fate transition by recruiting BAF complex to modulate chromatin accessibility and reorganize cell state specific enhancers. Our findings reveal alternative methods to control cell fate by manipulating chromatin accessibility.
 
Overall design We analyzed the gene expression profiles of NanogN70 or Nanog mediated somatic cell reprogramming at different reprogramming time points (Days 0,1,3,5,7,8,10,12) by RNA-seq. In addition, we also sequenced mouse ES cells, MEF, and iPSCs reprogrammed from mouse fibroblasts using NanogN70 or Nanog combinated with Oct4.
 
Contributor(s) HUANG T, LIU D, ZHAO C, WANG B, PEI D
Citation(s) 39043686
Submission date Sep 19, 2023
Last update date Aug 16, 2024
Contact name Chengchen Zhao
E-mail(s) zhaochengchen@westlake.edu.cn
Organization name Westlake University
Lab Laboratory of Cell Fate Control
Street address Dunyu Road No.600, Xihu District
City Hangzhou
State/province Zhejiang
ZIP/Postal code 310030
Country China
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (46)
GSM7789776 NanogN70+Oct4, Day0, Rep1
GSM7789777 NanogN70+Oct4, Day1, Rep1
GSM7789778 NanogN70+Oct4, Day3, Rep1
This SubSeries is part of SuperSeries:
GSE243517 Rational cell fate engineering through chromatin dynamics
Relations
BioProject PRJNA1018838

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Supplementary file Size Download File type/resource
GSE243516_GeneSymbol_fpkm.txt.gz 2.8 Mb (ftp)(http) TXT
GSE243516_iPSC_Transcript_fpkm.txt.gz 3.1 Mb (ftp)(http) TXT
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