ChIP-seq of trascription factors after SMARCA2/4 degrader treatment
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 21 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
- 21 samples: 6 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.
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 GSE280803_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 PRJNA1180564 and SRA study SRP542404. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 replicated groups read from 21 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.
- GSM8605967 DU145, DMSO, input
- GSM8605968 DU145, DMSO, SMARCA4
- GSM8605969 DU145, DMSO, FOSL1
- GSM8605970 DU145, DMSO, TEAD1
- GSM8605971 DU145, SMARCA2/4 degrader, input
- GSM8605972 DU145, SMARCA2/4 degrader, SMARCA4
- GSM8605973 DU145, SMARCA2/4 degrader, FOSL1
- GSM8605974 DU145, SMARCA2/4 degrader, TEAD1
- GSM8605975 MDA-PCa-2b, DMSO, SMARCA4, rep1 MDA-PCa-2b, DMSO, SMAR…
- GSM8605976 MDA-PCa-2b, DMSO, SMARCA4, rep2 MDA-PCa-2b, DMSO, SMAR…
- GSM8605977 MDA-PCa-2b, SMARCA2/4 degrader, SMARCA4, rep1 MDA-PCa-2b, SMARCA2/4 d…
- GSM8605978 MDA-PCa-2b, SMARCA2/4 degrader, SMARCA4, rep2 MDA-PCa-2b, SMARCA2/4 d…
- GSM8605979 MDA-PCa-2b, DMSO, AR, rep1 MDA-PCa-2b, DMSO, AR,
- GSM8605980 MDA-PCa-2b, DMSO, AR, rep2 MDA-PCa-2b, DMSO, AR,
- GSM8605981 MDA-PCa-2b, SMARCA2/4 degrader, AR, rep1 MDA-PCa-2b, SMARCA2/4 d…
- GSM8605982 MDA-PCa-2b, SMARCA2/4 degrader, AR, rep2 MDA-PCa-2b, SMARCA2/4 d…
- GSM8605983 MDA-PCa-2b, DMSO, FOXA1, rep1 MDA-PCa-2b, DMSO, FOXA…
- GSM8605984 MDA-PCa-2b, DMSO, FOXA1, rep2 MDA-PCa-2b, DMSO, FOXA…
- GSM8605985 MDA-PCa-2b, SMARCA2/4 degrader, FOXA1, rep1 MDA-PCa-2b, SMARCA2/4 d…
- GSM8605986 MDA-PCa-2b, SMARCA2/4 degrader, FOXA1, rep2 MDA-PCa-2b, SMARCA2/4 d…
- GSM8605987 MDA-PCa-2b, input
- GSE293334 Allelic topological centering by transcription factors drives oncogenic multi-enhancer transcriptional regulation [ChIP-seq] 60 samples shares chip-seq, factors
- GSE280574 mChIP-seq for high-throughput epigenomic profiling reveals a decoupling of H2A.Z and H3K4me3 in cancer 576 samples shares chip-seq
- GSE277608 Characterization of induced cohesin loop extrusion trajectories in living cells [ChIP-seq] 147 samples shares chip-seq
- GSE289805 Histone H4 lysine 20 tri-methylation safeguards breast cancer lineage fidelity and unfolded protein response [ChIP-seq/ATAC-seq] 126 samples shares chip-seq
- GSE297914 PU.1-Activated Genomic Regions Define Low-risk MDS Subsets Characterized by Immune Dysregulation and Disease Progression [ChIP-seq] 112 samples shares chip-seq
- GSE284519 TRIM33 loss reduces Androgen Receptor transcriptional output and H2BK120 ubiquitination [ChIP-seq] 93 samples shares chip-seq
- GSE296190 Hypoxic regulation of chromatin and gene transcription [ChIP-seq] 84 samples shares chip-seq
- GSE328191 Multiomic profiling of vascular endothelial cell differentiation from human embryonic stem cells [ChIP-seq] 80 samples shares chip-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.