ORCA-mediated Polycomb Repressive Complex stabilization maintains 3D-genome architecture and controls replication timing
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
- Polycomb-mediated 3D-genome organization controls replication timingScience advances · 2026
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 GSE291919_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 PRJNA1235780 and SRA study SRP570317. 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.
- GSM8844382 U2OS, Control, Replicate1, RNA Seq
- GSM8844383 U2OS, Control, Replicate 2, RNA Seq
- GSM8844384 U2OS, siORCA, Replicate1, RNA Seq
- GSM8844385 U2OS, siORCA, Replicate 2, RNA Seq
- GSM9395667 WI38, Control, Replicate1, RNA-Seq
- GSM9395668 WI38, Control, Replicate 2, RNA-Seq
- GSM9395669 WI38, siORCA, Replicate1, RNA-Seq
- GSM9395670 WI38, siORCA, Replicate 2, RNA-Seq
- GSM9395671 U2OS, Control, Replicate 1, RNA-Seq
- GSM9395672 U2OS, Control, Replicate 2, RNA-Seq
- GSM9395673 U2OS, siEZH2, Replicate 1, RNA-Seq
- GSM9395674 U2OS, siEZH2, Replicate 2, RNA-Seq
- GSE314620 ORCA-mediated Polycomb Repressive Complex stabilization maintains 3D-genome architecture and controls replication timing [Cut & Run] 14 samples shares 3d-genome, orca-mediated, stabilization, architecture, replication, repressive, maintains, polycomb
- GSE227941 The nucleoskeleton protein NuMA maintains local chromatin architecture partially through promoting linker histone H1’ binding to chromatin and nucleosome stacking 21 samples shares architecture, maintains
- GSE233772 Citrullination modulation maintains HIF-1A stabilization to drive tumor progression 9 samples shares stabilization, maintains
- GSE324454 Dissecting the cellular architecture of breast cancer brain metastases reveals prognostically distinct immune landscapes 128 samples shares architecture
- GSE274546 The Multi-Layered Transcriptional Architecture of Glioblastoma Ecosystems [10X] 121 samples shares architecture
- GSE280041 A long context RNA foundation model for predicting transcriptome architecture 104 samples shares architecture
- GSE322943 Dissecting the cellular architecture of breast cancer brain metastases reveals prognostically distinct immune landscapes [RNA-Seq] 100 samples shares architecture
- GSE330022 Multidimensional Exposure Architecture Shapes Vaping-Associated Transcriptomic Dysregulation in Oral Epithelium 83 samples shares architecture
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.