SIRT2 is a regulator of the differentiation block driven by SMARCB1 loss in ATRT [bulk RNA-seq]
Single-cell RNA-seq · human · 12 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 12 samples: 3 × BT16 cells treated with DMSO sample vs 3 × BT16 cells transduced with control shRNA SHC202 sample vs 3 × BT16 cells transduced with SIRT2 targeting shRNA TRCN0000040221 sample vs 3 × BT16 cells treated with Tenovin sampleGroups 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
- SIRT2 Regulates the SMARCB1 Loss-Driven Differentiation Block in ATRTMolecular cancer research : MCR · 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 GSE274373_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1146079 and SRA study SRP525190. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 3 samples read as cases, 3 as controls.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8448071 BT16 cells treated with DMSO sample1 BT16 cells treated with…
- GSM8448072 BT16 cells treated with DMSO sample 2 BT16 cells treated with…
- GSM8448073 BT16 cells treated with DMSO sample 3 BT16 cells treated with…
- GSM8448074 BT16 cells transduced with control shRNA SHC202 sample1 BT16 cells transduced w…
- GSM8448075 BT16 cells transduced with control shRNA SHC202 sample2 BT16 cells transduced w…
- GSM8448076 BT16 cells transduced with control shRNA SHC202 sample3 BT16 cells transduced w…
- GSM8448077 BT16 cells transduced with SIRT2 targeting shRNA TRCN0000040221 sample1 BT16 cells transduced w…
- GSM8448078 BT16 cells transduced with SIRT2 targeting shRNA TRCN0000040221 sample2 BT16 cells transduced w…
- GSM8448079 BT16 cells transduced with SIRT2 targeting shRNA TRCN0000040221 sample3 BT16 cells transduced w…
- GSM8448080 BT16 cells treated with Tenovin sample1 BT16 cells treated with…
- GSM8448081 BT16 cells treated with Tenovin sample2 BT16 cells treated with…
- GSM8448082 BT16 cells treated with Tenovin sample3 BT16 cells treated with…
- GSE290282 Large-scale tethered screen of RNA-binding proteins reveals novel regulators of poly(A) site selection [RNA-Seq] 92 samples shares regulator, rna-seq
- GSE278330 Systemic IL-23 blockade downregulates IL-23 receptor-expressing Type 17 T-cell subsets and upregulates regulatory gene expression in myeloid cells in human psoriasis skin 63 samples shares regulator, block
- GSE290220 TL1A-activated Tcells as upstream regulators of perianal fistulizing disease-associated changes in the rectum of Crohn's Disease patients [scRNA-seq] 29 samples shares regulator, rna-seq
- GSE291014 TL1A-activated Tcells as upstream regulators of perianal fistulizing disease-associated changes in the rectum of Crohn's Disease patients [RNA-seq] 28 samples shares regulator, rna-seq
- GSE314625 WSTF deficiency reprograms regulatory networks by linking locus‑specific chromatin remodeling to altered isoform expression and misdirected signaling [mRNA-seq] 18 samples shares regulator, rna-seq
- GSE182604 Integrative gene regulatory analysis reveals transcriptional mechanisms required in mature human hepatocytes and during in vitro hepatocyte differentiation (scRNA-Seq) 18 samples shares regulator, rna-seq
- GSE341753 Cohesin loading at regulatory elements shapes 3D genome folding during erythropoiesis [RNA-Seq] 12 samples shares regulator, rna-seq
- GSE269596 Multiplexed single-cell characterization of alternative polyadenylation regulators (scRNA-Seq) 12 samples shares regulator, rna-seq
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.