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Series GSE232931 Query DataSets for GSE232931
Status Public on Sep 07, 2024
Title LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [RNA-Seq_RSeT+DT_H9_L1KD]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary To study L1 knockdown effect in RSeT+DT naïve hES cells
 
Overall design In this study, we investigated LINE1 (L1), a major family of transposon elements (TEs) in the human genome, in naive hES cells for its roles in regulating 8-cell (8C) stage-specific totipotent genes.
RSeT media maintained naive H9 hES cells were transfected with non-specific targeting control anti-sense oligos (ASO-Ctr), L1 targeting sense oligos (SO-L1) and anti-sense oligos (ASO-L1), respectively. Transfected cells were maintained in the RSeT media added with 10 nM DZNep and 5nM TSA (RSeT+DT). 48 hours later, cells were directly processed for RNA extraction and RNA-seq library prep.
 
Contributor(s) Zhang J, Ramalho-Santos M
Citation(s) 39413784
Submission date May 19, 2023
Last update date Dec 08, 2024
Contact name Juan Zhang
E-mail(s) tzzhangjuan@gmail.com
Organization name LTRI
Street address 25 Orde Street, Room 6-1001 MRS
City Toronto
State/province Ontario
ZIP/Postal code M5T 3H7
Country Canada
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (12)
GSM7393983 RSeT media Rep1, ASO-Ctr
GSM7393984 RSeT media Rep1, SO-L1
GSM7393985 RSeT media Rep1, ASO-L1
This SubSeries is part of SuperSeries:
GSE232939 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs
Relations
BioProject PRJNA974450

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE232931_RSeT+DT_H9_ASO_sO-L1intORF_DEG_cutoff_0.2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE232931_RSeT+DT_H9_hL1KD-log2Nom_counts_cutoff_0.2_BatchCo.txt.gz 1.7 Mb (ftp)(http) TXT
GSE232931_RSeT+DT_H9_hL1KD-raw_counts_rmDup.txt.gz 751.1 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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