Investigate FOXA2, NKX2-1, CTCF and P300 cistrome and enhancer (H3K27ac and H3k4me1) reprogramming during NEPC transformation by ChIP-seq.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 104 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
- 104 samples: 104 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 GSE239270_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 PRJNA998718 and SRA study SRP451584. 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 104 sample titles: 104 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.
- GSM7662305 LNCaP, FOXA2-D0, H3K27ac ChIP
- GSM7662306 LNCaP, FOXA2-D2, H3K27ac ChIP
- GSM7662307 LNCaP, FOXA2-D7, sgNC, H3K27ac ChIP
- GSM7662308 LNCaP, FOXA2-D7, sgNKX2-1, H3K27ac ChIP
- GSM7662309 LNCaP, FOXA2-D14, sgNC, H3K27ac ChIP
- GSM7662310 LNCaP, FOXA2-D14, sgNKX2-1, H3K27ac ChIP
- GSM7662311 LNCaP, FOXA2-D21, sgNC, H3K27ac ChIP
- GSM7662312 LNCaP, FOXA2-D21, sgNKX2-1, H3K27ac ChIP
- GSM7662313 LNCaP, FOXA2-D28, sgNC, H3K27ac ChIP
- GSM7662314 LNCaP, FOXA2-D28, sgNKX2-1, H3K27ac ChIP
- GSM7662315 LNCaP, FOXA2-D0, H3K4me1 ChIP
- GSM7662316 LNCaP, FOXA2-D2, H3K4me1 ChIP
- GSM7662317 LNCaP, FOXA2-D7, sgNC, H3K4me1 ChIP
- GSM7662318 LNCaP, FOXA2-D7, sgNKX2-1, H3K4me1 ChIP
- GSM7662319 LNCaP, FOXA2-D14, sgNC, H3K4me1 ChIP
- GSM7662320 LNCaP, FOXA2-D14, sgNKX2-1, H3K4me1 ChIP
- GSM7662321 LNCaP, FOXA2-D21, sgNC, H3K4me1 ChIP
- GSM7662322 LNCaP, FOXA2-D21, sgNKX2-1, H3K4me1 ChIP
- GSM7662323 LNCaP, FOXA2-D28, sgNC, H3K4me1 ChIP
- GSM7662324 LNCaP, FOXA2-D28, sgNKX2-1, H3K4me1 ChIP
- GSM7662325 LNCaP, FOXA2-D0, FOXA2 ChIP
- GSM7662326 LNCaP, FOXA2-D2, FOXA2 ChIP
- GSM7662327 LNCaP, FOXA2-D7, sgNC, FOXA2 ChIP
- GSM7662328 LNCaP, FOXA2-D7, sgNKX2-1, FOXA2 ChIP
- GSM7662329 LNCaP, FOXA2-D14, sgNC, FOXA2 ChIP
- GSM7662330 LNCaP, FOXA2-D14, sgNKX2-1,FOXA2 ChIP
- GSM7662331 LNCaP, FOXA2-D21, sgNC, FOXA2 ChIP
- GSM7662332 LNCaP, FOXA2-D21, sgNKX2-1,FOXA2 ChIP
- GSM7662333 LNCaP, FOXA2-D28, sgNC, FOXA2 ChIP
- GSM7662334 LNCaP, FOXA2-D28, sgNKX2-1, FOXA2 ChIP
- GSM7662335 LNCaP, FOXA2-D7, sgNC, NKX2-1 ChIP
- GSM7662336 LNCaP, FOXA2-D7, sgNKX2-1, NKX2-1 ChIP
- GSM7662337 LNCaP, FOXA2-D14, sgNC, NKX2-1 ChIP
- GSM7662338 LNCaP, FOXA2-D14, sgNKX2-1,NKX2-1 ChIP
- GSM7662339 LNCaP, FOXA2-D21, sgNC, NKX2-1 ChIP
- GSM7662340 LNCaP, FOXA2-D21, sgNKX2-1, NKX2-1 ChIP
- GSM7662341 LNCaP, FOXA2-D28, sgNC, NKX2-1 ChIP
- GSM7662342 LNCaP, FOXA2-D28, sgNKX2-1, NKX2-1 ChIP
- GSM7662343 LNCaP, FOXA2-D2, CTCF ChIP
- GSM7662344 LNCaP, FOXA2-D14, CTCF ChIP
+ 64 more — browse all 104 samples with per-sample file links →
- GSE239275 Investigate FOXA2, NKX2-1 and P300 regulated transcription program by RNA-seq in prostate cancer cells. 52 samples shares nkx2-1, foxa2, p300
- GSE239269 Investigate FOXA2 regulated chromatin state program during NEPC transformation by ATAC-seq. 12 samples shares foxa2, nepc, transformation
- GSE239274 Investigate FOXA2 mediated DNA demethylation during NEPC transformation by Nanopore Long Read sequencing. 13 samples shares foxa2, nepc, transformation
- GSE275303 Identifying RARG fusions or PML-RARA binding genes or analysis the epigenetic changes (H3K27ac, H3K4me1, and H3K4me3) in hCD34+ cells overexpressing CPSF6::RARG and NUP98::RARG. 34 samples shares h3k27ac, h3k4me1
- GSE308264 Genome-wide profiling of histone modification H3K27ac and CTCF transcription factor binding in Rett syndrome iPS cells 24 samples shares h3k27ac, ctcf
- GSE246314 Genome-wide profiling of histone modification H3K27ac and CTCF transcription factor binding following VPA treatment in HEK293 cells 18 samples shares h3k27ac, ctcf
- GSE210081 Identification of H3K27ac marks influenced by FOXA2 and/or mutant KRAS in BEAS-2B transformed human bronchial epithelial cells 16 samples shares h3k27ac, foxa2
- GSE244729 H3K27ac and H3K4me1 histone mark profiles in term pregnant human myometrial tissues 10 samples shares h3k27ac, h3k4me1
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.