LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [RNA-Seq_RSeT_H9_L1KD]
RNA-seq (gene expression) · human · 12 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 12 samples: 12 samples, each with a distinct title — no replicated groupsGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- LINE1 and PRC2 control nucleolar organization and repression of the 8C state in human ESCsDevelopmental cell · 2025
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE232937_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA974453 and SRA study SRP438656. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 12 sample titles: 12 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM7395090 RSeT_H9,L1KD Rep1, ASO-Ctr
- GSM7395091 RSeT_H9,L1KD Rep1, sO-L1
- GSM7395092 RSeT_H9,L1KD Rep1, ASO-L1
- GSM7395093 RSeT_H9,L1KD Rep2, ASO-Ctr
- GSM7395094 RSeT_H9,L1KD Rep2, sO-L1
- GSM7395095 RSeT_H9,L1KD Rep2, ASO-L1
- GSM7395097 RSeT_H9,L1KD Rep3, ASO-Ctr
- GSM7395098 RSeT_H9,L1KD Rep3, sO-L1
- GSM7395099 RSeT_H9,L1KD Rep3, ASO-L1
- GSM7395100 RSeT_H9,L1KD Rep4, ASO-Ctr
- GSM7395101 RSeT_H9,L1KD Rep4, sO-L1
- GSM7395102 RSeT_H9,L1KD Rep4, ASO-L1
- GSE232931 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [RNA-Seq_RSeT+DT_H9_L1KD] 12 samples shares 8c-state, line1, prc2, l1kd, organization, repression, nucleolar, control
- GSE232932 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [RNA-Seq_RSeT+DT_H9_L1KD+siRNA-KD] 9 samples shares 8c-state, line1, prc2, l1kd, organization, repression, nucleolar, control
- GSE232930 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [RNA-Seq_Primed_H9_L1KD] 6 samples shares 8c-state, line1, prc2, l1kd, organization, repression, nucleolar, control
- GSE263287 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [RNA-seq_PXGL H9_L1KD] 6 samples shares 8c-state, line1, prc2, l1kd, organization, repression, nucleolar, control
- GSE263290 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [H3K27me3 ChIP-seq,RSeT+DT_L1KD] 6 samples shares 8c-state, line1, prc2, l1kd, organization, repression, nucleolar, control
- GSE275237 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [RNA-seq_primed,RSeT,RSeT+DT_hESCs] 6 samples shares 8c-state, line1, prc2, organization, repression, nucleolar, control
- GSE263288 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [RNA-Seq_RSeT+DT H9_EZH2i] 6 samples shares 8c-state, line1, prc2, organization, repression, nucleolar, control
- GSE232938 LINE1 and PRC2 control nucleolar organization and repression of the 8C-state in human ESCs [scRNA-seq] 2 samples shares 8c-state, line1, prc2, organization, repression, nucleolar, control
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.