variant Polycomb Repressive complexes 1 (vPRC1s) in synovial sarcoma
RNA-seq (gene expression) · human · 16 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
- 16 samples: 8 conditions, mostly in duplicateGroups 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
- DNA demethylating agents suppress preclinical models of synovial sarcomaThe Journal of clinical investigation · 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 GSE291441_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 PRJNA1233601 and SRA study SRP568902. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8835738 HSSY, Empty Vector, R1 HSSY, Empty Vector,
- GSM8835739 HSSY, Empty Vector, R2 HSSY, Empty Vector,
- GSM8835740 HSSY, sgPCGF1, R1 HSSY, sgPCGF1,
- GSM8835741 HSSY, sgPCGF1, R2 HSSY, sgPCGF1,
- GSM8835742 HSSY, sgPCGF3, R1 HSSY, sgPCGF3,
- GSM8835743 HSSY, sgPCGF3, R2 HSSY, sgPCGF3,
- GSM8835744 HSSY, sgSSX, R1 HSSY, sgSSX,
- GSM8835745 HSSY, sgSSX, R2 HSSY, sgSSX,
- GSM8835746 SYOI, Empty Vector, R1 SYOI, Empty Vector,
- GSM8835747 SYOI, Empty Vector, R2 SYOI, Empty Vector,
- GSM8835748 SYOI, sgPCGF1, R1 SYOI, sgPCGF1,
- GSM8835749 SYOI, sgPCGF1, R2 SYOI, sgPCGF1,
- GSM8835750 SYOI, sgPCGF3, R1 SYOI, sgPCGF3,
- GSM8835751 SYOI, sgPCGF3, R2 SYOI, sgPCGF3,
- GSM8835752 SYOI, sgSSX, R1 SYOI, sgSSX,
- GSM8835753 SYOI, sgSSX, R2 SYOI, sgSSX,
- GSE200514 A Conserved Switch to Less Catalytically Active Polycomb Repressive Complexes in non-dividing cells 46 samples shares repressive, complexes, polycomb
- GSE266633 Select chromatin complexes are essential drivers of pathogenic enhancer activity and gene expression in Ewing sarcoma [RNA-seq] 41 samples shares complexes, sarcoma
- GSE305426 DNA Hypomethylation is Not Cell Intrinsically Toxic to Polycomb Repressive Complex 2 Deficient Malignant Peripheral Nerve Sheath Tumors 36 samples shares repressive, polycomb
- GSE287322 Molecular signatures define BAP1-altered meningioma as a distinct CNS tumor with deregulation of Polycomb repressive complex target genes 29 samples shares repressive, polycomb
- GSE294308 5-hydroxymethylcytosine deposition mediates Polycomb Repressive Complex 2 function in MYCN-amplified neuroblastoma [RNA-seq] 14 samples shares repressive, polycomb
- GSE291919 ORCA-mediated Polycomb Repressive Complex stabilization maintains 3D-genome architecture and controls replication timing 12 samples shares repressive, polycomb
- GSE316416 Dissecting polycomb complexes for enhanced phenotypic selectivity [RNA-Seq] 9 samples shares complexes, polycomb
- GSE266666 Select chromatin complexes are essential drivers of pathogenic enhancer activity and gene expression in Ewing sarcoma [ChIP-Seq] 101 samples shares complexes, sarcoma
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.