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Series GSE232932 Query DataSets for GSE232932
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+siRNA-KD]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary To study siRNA-mediated TPRX1, TP53 and H3.XY co-knockdown effected when transfected together with L1 targeting anti sense oligos (ASO-L1) in RSeT+DT naïve hES cells.
 
Overall design In this study, we investigated if co-knockdown of TPRX1, TP53 or H3.XY expression would reverse the ASO-L1 knockdown induced 8-cell (8C) stage-specific genes upregulation.
RSeT media maintained naive H9 hES cells were transfected with non-specific targeting control anti-sense oligos (ASO-Ctr) or ASO-L1, together with 6-FAM (Fluorescein) labeled siRNAs targeting non-specific sequence (NTsi), TPRX1 (TPRX1si), TP53 (TP53si) and H3.XY (H3.XYsi), respectively. Transfected cells were maintained in the RSeT media added with 10 nM DZNep and 5nM TSA (RSeT+DT). 48 hours later, FAM+ cells were FACS collected and immediately 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 (9)
GSM7394459 Rep1, ASO-Ctr+NT-siRNA
GSM7394460 Rep1, ASO-L1+NT-siRNA
GSM7394461 Rep1, ASO-L1+TPRX1-siRNA
This SubSeries is part of SuperSeries:
GSE232939 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs
Relations
BioProject PRJNA974451

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
GSE232932_RSeT+DT_H9_L1KD.H3XYsi_CtrA.NTsi_cutoff_0.2.txt.gz 840.5 Kb (ftp)(http) TXT
GSE232932_RSeT+DT_H9_L1KD.H3XYsi_L1KD.NT.siRNA_cutoff_0.2.txt.gz 1.2 Mb (ftp)(http) TXT
GSE232932_RSeT+DT_H9_L1KD.NTsiRNA_CtrA.NTsi_cutoff_0.2.txt.gz 842.9 Kb (ftp)(http) TXT
GSE232932_RSeT+DT_H9_L1KD.TP53si_CtrA.NTsi_cutoff_0.2.txt.gz 1.2 Mb (ftp)(http) TXT
GSE232932_RSeT+DT_H9_L1KD.TP53si_L1KD.NT.siRNA_cutoff_0.2.txt.gz 1.2 Mb (ftp)(http) TXT
GSE232932_RSeT+DT_H9_L1KD.TPRX1si_CtrA.NTsi_cutoff_0.2.txt.gz 842.7 Kb (ftp)(http) TXT
GSE232932_RSeT+DT_H9_L1KD.TPRX1si_L1KD.NT.siRNA_cutoff_0.2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE232932_RSeT+DT_H9_hL1KD+TPRX1si_log2Nom_counts_BatchCo_cutoff_0.2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE232932_RSeT+DT_H9_hL1KD+TPRX1si_raw_counts_rmDup.txt.gz 709.2 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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