Decoding the Epigenetics and Chromatin Loop Dynamics of Androgen Receptor-Mediated Transcription
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 75 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
- 75 samples: 75 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
- Decoding the epigenetics and chromatin loop dynamics of androgen receptor-mediated transcriptionNature communications · 2024
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 GSE251898_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 PRJNA1055889 and SRA study SRP479650. 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 75 sample titles: 75 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.
- GSM7989592 LNCaP_0m_rep1_ATACseq
- GSM7989593 LNCaP_0m_rep2_ATACseq
- GSM7989594 LNCaP_30m_rep1_ATACseq
- GSM7989595 LNCaP_30m_rep2_ATACseq
- GSM7989596 LNCaP_4h_rep1_ATACseq
- GSM7989597 LNCaP_4h_rep2_ATACseq
- GSM7989598 LNCaP_16h_rep1_ATACseq
- GSM7989599 LNCaP_16h_rep2_ATACseq
- GSM7989600 LNCaP_72h_rep1_ATACseq
- GSM7989601 LNCaP_72h_rep2_ATACseq
- GSM7989602 LNCaP_AR_0m_ChIPseq
- GSM7989603 LNCaP_AR_30m_ChIPseq
- GSM7989604 LNCaP_AR_4h_ChIPseq
- GSM7989605 LNCaP_AR_16h_ChIPseq
- GSM7989606 LNCaP_AR_72h_ChIPseq
- GSM7989607 LNCaP_FOXA1_0m_ChIPseq
- GSM7989608 LNCaP_FOXA1_30m_ChIPseq
- GSM7989609 LNCaP_FOXA1_4h_ChIPseq
- GSM7989610 LNCaP_FOXA1_16h_ChIPseq
- GSM7989611 LNCaP_FOXA1_72h_ChIPseq
- GSM7989612 LNCaP_H3K27ac_0m_rep1_ChIPseq
- GSM7989613 LNCaP_H3K27ac_0m_rep2_ChIPseq
- GSM7989614 LNCaP_H3K27ac_30m_rep1_ChIPseq
- GSM7989615 LNCaP_H3K27ac_30m_rep2_ChIPseq
- GSM7989616 LNCaP_H3K27ac_4h_rep1_ChIPseq
- GSM7989617 LNCaP_H3K27ac_4h_rep2_ChIPseq
- GSM7989618 LNCaP_H3K27ac_16h_rep1_ChIPseq
- GSM7989619 LNCaP_H3K27ac_16h_rep2_ChIPseq
- GSM7989620 LNCaP_H3K27ac_72h_rep1_ChIPseq
- GSM7989621 LNCaP_H3K27ac_72h_rep2_ChIPseq
- GSM7989622 LNCaP_H3K4me3_0m_ChIPseq
- GSM7989623 LNCaP_H3K4me3_30m_ChIPseq
- GSM7989624 LNCaP_H3K4me3_4h_ChIPseq
- GSM7989625 LNCaP_H3K4me3_16h_ChIPseq
- GSM7989626 LNCaP_H3K4me3_72h_ChIPseq
- GSM7989627 LNCaP_INPUT_0m_ChIPseq
- GSM7989628 LNCaP_INPUT_30m_ChIPseq
- GSM7989629 LNCaP_INPUT_4h_ChIPseq
- GSM7989630 LNCaP_INPUT_16h_ChIPseq
- GSM7989631 LNCaP_INPUT_72h_ChIPseq
+ 35 more — browse all 75 samples with per-sample file links →
- GSE296192 Hypoxic regulation of chromatin and gene transcription 98 samples shares transcription, chromatin
- GSE284519 TRIM33 loss reduces Androgen Receptor transcriptional output and H2BK120 ubiquitination [ChIP-seq] 93 samples shares transcription, androgen
- GSE296190 Hypoxic regulation of chromatin and gene transcription [ChIP-seq] 84 samples shares transcription, chromatin
- GSE287902 BPTF regulstes androgen receptor activity by enhancing chromatin accessibility and stabilizing the AR-FOXA1 interaction [Cut&Run] 40 samples shares chromatin, androgen
- GSE282760 Epigenomic manipulation reveals the relationship between locus specific chromatin dynamics and gene expression [ChIP-seq] 36 samples shares chromatin, dynamics
- GSE301512 Chromatin topology dynamics of dexamethasone-treated trabecular meshwork identifies 78 causal genes for intraocular pressure and primary open angle glaucoma [CUT&Run] 30 samples shares chromatin, dynamics
- GSE314776 Decoding 3D chromatin architecture reveals distinct enhancer classes underlying hierarchical gene regulation in prostate cancer [ChIP-Seq] 24 samples shares chromatin, decoding
- GSE240343 STAG2 mutations and 3D genome organization, chromatin loops, and polycomb signaling in glioblastoma multiforme 20 samples shares chromatin, loop
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.