Investigate FOXA2 regulated chromatin state program during NEPC transformation by ATAC-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
- NKX2-1 drives neuroendocrine transdifferentiation of prostate cancer via epigenetic and 3D chromatin remodelingNature genetics · 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 GSE239269_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 PRJNA998717 and SRA study SRP451504. 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.
- GSM7662293 LNCaP, FOXA2-D2 1# ATAC-seq
- GSM7662294 LNCaP, FOXA2-D21 1# ATAC-seq
- GSM7662295 LNCaP, FOXA2-D0 1# ATAC-seq
- GSM7662296 LNCaP, FOXA2-D2 2# ATAC-seq
- GSM7662297 LNCaP, FOXA2-D7 1# ATAC-seq
- GSM7662298 LNCaP, FOXA2-D14 1# ATAC-seq
- GSM7662299 LNCaP, FOXA2-D21 2# ATAC-seq
- GSM7662300 LNCaP, FOXA2-D28 1# ATAC-seq
- GSM7662301 LNCaP, FOXA2-D0 2# ATAC-seq
- GSM7662302 LNCaP, FOXA2-D7 2# ATAC-seq
- GSM7662303 LNCaP, FOXA2-D14 2# ATAC-seq
- GSM7662304 LNCaP, FOXA2-D28 2# ATAC-seq
- GSE239270 Investigate FOXA2, NKX2-1, CTCF and P300 cistrome and enhancer (H3K27ac and H3k4me1) reprogramming during NEPC transformation by ChIP-seq. 104 samples shares foxa2, nepc, transformation, investigate, program
- GSE239274 Investigate FOXA2 mediated DNA demethylation during NEPC transformation by Nanopore Long Read sequencing. 13 samples shares foxa2, nepc, transformation, investigate
- GSE239275 Investigate FOXA2, NKX2-1 and P300 regulated transcription program by RNA-seq in prostate cancer cells. 52 samples shares foxa2, investigate, program, state
- GSE293201 Ectopic MYC Expression Reprograms Epigenetic Landscapes and Transcription Factor Networks to Drive Differentiation Block and Malignant Transformation in AML [ATAC-seq] 35 samples shares transformation, atac-seq, program
- GSE291318 Epigenomic profiling of circulating chromatin to detect and monitor squamous transformation in prostate cancer 12 samples shares transformation, chromatin, state
- GSE281784 Targeting FOXA1 and FOXA2 Disrupts the Lineage-Specific Oncogenic Output in Prostate Cancer [ChIP-seq] 67 samples shares foxa2, state
- GSE281794 Targeting FOXA1 and FOXA2 Disrupts the Lineage-Specific Oncogenic Output in Prostate Cancer 97 samples shares foxa2, state
- GSE279872 Targeting FOXA1 and FOXA2 Disrupts the Lineage-Specific Oncogenic Output in Prostate Cancer [RNA-seq] 30 samples shares foxa2, state
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.