Enhancer reprogramming underlies therapeutic utility of a SMARCA2 degrader in SMARCA4 mutant cancer [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 12 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
- 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
- Enhancer reprogramming underlies therapeutic utility of a SMARCA2 degrader in SMARCA4 mutant cancerCell chemical biology · 2024
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 GSE236589_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 PRJNA991605 and SRA study SRP447539. 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.
- GSM7559429 H1693.H3K27ac
- GSM7559430 H1693.H3K4me1
- GSM7559431 H1693.Input
- GSM7559432 H1975.H3K27ac
- GSM7559433 H1975.H3K4me1
- GSM7559434 H1975.Input
- GSM7559435 HCC44.H3K27ac
- GSM7559436 HCC44.H3K4me1
- GSM7559437 HCC44.Input
- GSM7559438 H322.H3K27ac
- GSM7559439 H322.H3K4me1
- GSM7559440 H322.Input
- GSE206726 Epigenetic reprogramming of the mesenchymal state by SUV39H1/H2 [ChIP-Seq] 42 samples shares reprogramming, chip-seq
- GSE311971 Regulation of lineage reprogramming by dynamic chromatin SUMOylation (ChIP-seq) 41 samples shares reprogramming, chip-seq
- GSE261321 NF-κB- and TET2-mediated macrophage reprogramming overrides the anti-inflammatory effects of hypoxia and improves responses in human cancer ChIP-Seq). 24 samples shares reprogramming, chip-seq
- GSE308983 Reprogramming lineage features promotes epithelial behavior in carcinoma cells [ChIP-Seq] 23 samples shares reprogramming, chip-seq
- GSE314430 HDAC4 myonuclear reprogramming underlies denervation and weakness following musculoskeletal trauma 43 samples shares reprogramming, underlies
- GSE305637 Transcriptomic Reprogramming of T Cells Underlies Rituximab Efficacy in Idiopathic Nephrotic Syndrome 24 samples shares reprogramming, underlies
- GSE286923 Modularity of OCT4 underlies its functional diversity in reprogramming and embryonic development. 19 samples shares reprogramming, underlies
- GSE292538 KRAS-Dependent Metabolic Reprogramming of Endothelial Cells as a Therapeutic Vulnerability in Brain Arteriovenous Malformations 18 samples shares reprogramming, therapeutic
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.