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Series GSE199739 Query DataSets for GSE199739
Status Public on Jun 10, 2022
Title NuRD complex recruitment to Thpok mediates CD4+ T cell lineage differentiation
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Although BTB-zinc finger (BTB-ZF) transcription factors control the differentiation of multiple hematopoietic and immune lineages, how they function is poorly understood. The BTB-ZF factor Thpok controls intrathymic CD4+ T cell development and expression of most CD4+- and CD8+-lineage genes. Here, we identify the nucleosome remodeling and deacetylase (NuRD) complex as a novel Thpok cofactor. We locate three amino-acid residues within the Thpok BTB domain that are required for both NuRD binding and Thpok functions, and show that NuRD recruitment recapitulates the functions of the Thpok BTB domain. NuRD mediates Thpok repression of CD8+-lineage genes, including the transcription factor Runx3, but is dispensable for Cd4 expression. We show that these functions cannot be performed by the BTB domain of the Thpok-related factor Bcl6, which fails to bind NuRD. Thus, cofactor binding critically contributes to the functional specificity of BTB-zinc finger factors, which control the differentiation of most hematopoietic subsets.
 
Overall design Nuclei were isolated following the recommended protocol from 10X Genomics. Transposition and scATACseq capture was performed with the 10X Chromium Single Cell ATAC Solution (v1.0) , following the manufacturer's recommended protocol
 
Contributor(s) Chopp LB, Gao Y, Bosselut R
Citation(s) 35687698
Submission date Mar 30, 2022
Last update date Sep 09, 2022
Contact name Remy Bosselut
E-mail(s) bosselur@helix.nih.gov
Phone 240-760-6866
Organization name National Cancer Institute, National Institute of Health
Department Laboratory of Immune Cell Biology
Lab Bosselut
Street address 9000 Rockville Pike, Building 37
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (4)
GSM5983560 WT scATACseq rep 1
GSM5983561 KO scATACseq rep 1
GSM5983562 WT scATACseq rep 2
Relations
BioProject PRJNA821414

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Supplementary file Size Download File type/resource
GSE199739_RAW.tar 2.4 Gb (http)(custom) TAR (of BAI, CSV, H5, TBI, TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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