Activation of the imprinted Prader-Willi Syndrome locus by CRISPR-based epigenome editing [RNA-seq]
RNA-seq (gene expression) · human · 18 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
- 18 samples: 6 conditions, mostly in triplicateGroups 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
- Activation of the imprinted Prader-Willi syndrome locus by CRISPR-based epigenome editingCell genomics · 2025
Read the full summary ↓
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 GSE243185_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 PRJNA1017355 and SRA study SRP460515. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 of them. 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.
- GSM8698396 WT iPSC VP64 NT gRNA rep1 WT iPSC VP64 NT gRNA
- GSM8698397 WT iPSC VP64 NT gRNA rep2 WT iPSC VP64 NT gRNA
- GSM8698398 WT iPSC VP64 NT gRNA rep3 WT iPSC VP64 NT gRNA
- GSM8698399 WT iPSC Tet1v4 NT gRNA rep1 WT iPSC Tet1v4 NT gRNA
- GSM8698400 WT iPSC Tet1v4 NT gRNA rep2 WT iPSC Tet1v4 NT gRNA
- GSM8698401 WT iPSC Tet1v4 NT gRNA rep3 WT iPSC Tet1v4 NT gRNA
- GSM8698402 ∆PWS iPSC VP64 NT gRNA rep1 ∆PWS iPSC VP64 NT gRNA
- GSM8698403 ∆PWS iPSC VP64 NT gRNA rep2 ∆PWS iPSC VP64 NT gRNA
- GSM8698404 ∆PWS iPSC VP64 NT gRNA rep3 ∆PWS iPSC VP64 NT gRNA
- GSM8698405 ∆PWS iPSC VP64 mat1 gRNA rep1 ∆PWS iPSC VP64 mat1 gRNA
- GSM8698406 ∆PWS iPSC VP64 mat1 gRNA rep2 ∆PWS iPSC VP64 mat1 gRNA
- GSM8698407 ∆PWS iPSC VP64 mat1 gRNA rep3 ∆PWS iPSC VP64 mat1 gRNA
- GSM8698408 ∆PWS iPSC Tet1v4 NT gRNA rep1 ∆PWS iPSC Tet1v4 NT gRNA
- GSM8698409 ∆PWS iPSC Tet1v4 NT gRNA rep2 ∆PWS iPSC Tet1v4 NT gRNA
- GSM8698410 ∆PWS iPSC Tet1v4 NT gRNA rep3 ∆PWS iPSC Tet1v4 NT gRNA
- GSM8698411 ∆PWS iPSC Tet1v4 mat3 gRNA rep1 ∆PWS iPSC Tet1v4 mat3 g…
- GSM8698412 ∆PWS iPSC Tet1v4 mat3 gRNA rep2 ∆PWS iPSC Tet1v4 mat3 g…
- GSM8698413 ∆PWS iPSC Tet1v4 mat3 gRNA rep3 ∆PWS iPSC Tet1v4 mat3 g…
- GSE327289 Cerebrovascular Single-Nucleus RNA-Seq Reveals Heat Shock Activation and Vascular Remodeling in Alzheimer’s Disease and Primary Tauopathies 76 samples shares activation, rna-seq
- GSE304579 Alternative End-Joining Activation by miR-21-5p Confers Radiation Resistance in Oral Squamous Cell Carcinoma [RNA-seq of SUGH-OSCC patient tumors] 34 samples shares activation, rna-seq
- GSE303856 CPSF73 activation and 3’ Pol II pausing are lost during read-through transcription after heat shock [RNA-seq] 14 samples shares activation, rna-seq
- GSE270732 The immune profile of circulating autoreactive CD4 T cells is imprinted through tissue activation during autoimmune liver diseases (Exp 1) 13 samples shares activation, imprinted
- GSE290246 Transcriptional activation of the CXCL gene family locus in mature human sperm in the presence of female-derived reproductive fluid 10 samples shares activation, locus
- GSE300717 RNA-seq and ATAC-seq analysis of 5-azacytidine-treated HepG2 cells reveals epigenetic reactivation of BFL-1 and SQOR in hepatocellular carcinoma 17 samples shares activation, rna-seq
- GSE274680 Inflammation and lymphocyte activation during longitudinal progression to rheumatoid arthritis in at-risk individuals 243 samples shares activation
- GSE318645 Dual Immune Checkpoint Blockade Induces Distinct Systemic and Intratumoral Immune Activation in Recurrent Glioblastoma 226 samples shares activation
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.