SIRT2 is a regulator of the differentiation block driven by SMARCB1 loss in ATRT.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 32 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Samples
- 32 samples: 24 distinct titles, 4 of them repeatedGroups 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
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 GSE273455_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1141946 and SRA study SRP525190. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 4 samples read as cases, 12 as controls.
How we read this: Read from 32 sample titles: 24 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.
- GSM8428054 BT16 cells, DMSO, replicate 1, RNA-seq
- GSM8428055 BT16 cells, DMSO, replicate 2, RNA-seq
- GSM8428056 BT16 cells, DMSO, replicate 3, RNA-seq
- GSM8428057 BT16 cells, DMSO, replicate 4, RNA-seq
- GSM8428058 BT16 cells, TM, replicate 1, RNA-seq
- GSM8428059 BT16 cells, TM, replicate 2, RNA-seq
- GSM8428060 BT16 cells, TM, replicate 3, RNA-seq
- GSM8428061 BT16 cells, TM, replicate 4, RNA-seq
- GSM8428062 BT16 cells, H3K4me3, DMSO, CUT&RUN
- GSM8428063 BT16 cells, H3K4me3, TM, CUT&RUN
- GSM8428064 BT16 cells, H3K27me3, DMSO, replicate 1, CUT&RUN
- GSM8428065 BT16 cells, H3K27me3, TM, replicate 1, CUT&RUN
- GSM8428066 BT16 cells, H3K27me3, DMSO, replicate 2, CUT&RUN
- GSM8428067 BT16 cells, H3K27me3, TM, replicate 2, CUT&RUN
- GSM8428068 BT16 cells, H3K27ac, DMSO, CUT&RUN
- GSM8428069 BT16 cells, H3K27ac, TM, CUT&RUN
- GSM8428070 BT16 cells, IgG, DMSO, CUT&RUN
- GSM8428071 BT16 cells, IgG, TM, CUT&RUN
- GSM8448071 BT16 cells treated with DMSO sample1
- GSM8448072 BT16 cells treated with DMSO sample 2
- GSM8448073 BT16 cells treated with DMSO sample 3
- GSM8448074 BT16 cells transduced with control shRNA SHC202 sample1
- GSM8448075 BT16 cells transduced with control shRNA SHC202 sample2
- GSM8448076 BT16 cells transduced with control shRNA SHC202 sample3
- GSM8448077 BT16 cells transduced with SIRT2 targeting shRNA TRCN0000040221 sample1
- GSM8448078 BT16 cells transduced with SIRT2 targeting shRNA TRCN0000040221 sample2
- GSM8448079 BT16 cells transduced with SIRT2 targeting shRNA TRCN0000040221 sample3
- GSM8448080 BT16 cells treated with Tenovin sample1
- GSM8448081 BT16 cells treated with Tenovin sample2
- GSM8448082 BT16 cells treated with Tenovin sample3
- GSM8548823 BT16 cells treated with DMSO (Vehichle control)
- GSM8548824 BT16 cells treated with TM
- GSE274373 SIRT2 is a regulator of the differentiation block driven by SMARCB1 loss in ATRT [bulk RNA-seq] 12 samples shares smarcb1, sirt2, atrt, regulator, driven, block, loss
- 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
- GSE182605 Integrative gene regulatory analysis reveals transcriptional mechanisms required in mature human hepatocytes and during in vitro hepatocyte differentiation 35 samples shares regulator
- GSE342301 SIRT2 deacylase modulators control B cell metabolic reprogramming in EBV infection and mitogenic activation 8 samples shares sirt2
- GSE287535 FeaSion Decodes the Regulatory Landscape and Functional Diversity of RNA Polymerase II CTD Phosphorylation 225 samples shares regulator
- GSE327101 Single-Cell Multimodal Atlas Reveals Regulatory Programs in the Human Brain 220 samples shares regulator
- GSE200492 Transcriptomic Landscape of Human iPSCs-derived Osteogenic Differentiation Identifies a Key Regulator, KLF16 60 samples shares regulator
- GSE331167 Photoproximity labeling of c-Myc reveals SLK as a cancer-specific co-regulator 47 samples shares regulator
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.