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SRX12391703: GSM5602445: THAP1+/- SHSY5Y H3K27ac Rep2; Homo sapiens; ChIP-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 60.6M spots, 6.2G bases, 1.7Gb downloads

External Id: GSM5602445_r1
Submitted by: Institute of Medical Genetics and Applied Genomics, University of Tuebingen
Study: THAP1 is cell type dependent regulator of SP1 family crucial for dystonic syndromes in human and rat [SHSY5Y_ChIP-seq]
show Abstracthide Abstract
THAP1 is a transcription factor and its mutations are responsible for DYT6 dystonia. However, how THAP1 mutations lead to these gene expression alterations and whether the gene expression changes are also reflected in the brain of THAP1 patients are still unclear. In this study we used epigenetic and transcriptomic approaches combined with multiple model systems to uncover the function of THAP1 and the potential pathogenesis of DYT6 dystonia. THAP1 mutations lead to dysregulation of genes mainly through regulation of SP1 family members, SP1 and SP4, in a cell type dependent manner. Overall design: ChIP-seq analysis of wild-type and THAP1 heterozygous knock-out SHSY5Y cells
Sample: THAP1+/- SHSY5Y H3K27ac Rep2
SAMN21889463 • SRS10361604 • All experiments • All runs
Organism: Homo sapiens
Library:
Name: GSM5602445
Instrument: Illumina NovaSeq 6000
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: SINGLE
Construction protocol: Cells were crosslinked by 1% formaldehyde (ThermoFisher scientific) and sonicated in RIPA buffer (10 mM Tris-HCl, 1 mM EDTA, 0.5% sodium deoxycholate, 0.1% SDS, 1% NP-40, 1× Protease inhibitor cocktail (Roche), pH 8.0) to 200-500 bp. The sonicated lysate was subjected to immunoprecipitation with specific antibody. The immunoprecipitated DNA (at least 1ng) was purified and subjected to libraries generation. ChIP-seq libraries were generated using NEBNext® Ultra™ II DNA Library Prep Kit (New England Biolabs) according to the manufacturer's instructions.
Runs: 1 run, 60.6M spots, 6.2G bases, 1.7Gb
Run# of Spots# of BasesSizePublished
SRR1610613860,644,1916.2G1.7Gb2022-09-28

ID:
16702920

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