Foxa1 mutations co-opt nascent transcription factor networks in partnership with androgen receptor to enhance prostate tumorigenicity
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 38 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
- Mus musculus (mouse)
- Samples
- 38 samples: 38 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.
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 GSE285574_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 PRJNA1204912 and SRA study SRP554720. 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 38 sample titles: 38 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.
- GSM8705042 Empty Vector control in Pou2f1/Gata3 experiment (snATAC-seq)
- GSM8705043 Foxa1 G275X Gata3 KO in Pou2f1/Gata3 experiment (snATAC-seq)
- GSM8705044 Foxa1 G275X in Pou2f1/Gata3 experiment (snATAC-seq)
- GSM8705045 Foxa1 G275X Pou2f1 KO in Pou2f1/Gata3 experiment (snATAC-seq)
- GSM8705046 Empty Vector Day0 (snATAC-seq)
- GSM8705047 Empty Vector Day1 (snATAC-seq)
- GSM8705048 Empty Vector Day5 (snATAC-seq)
- GSM8705049 G275X Day0 (snATAC-seq)
- GSM8705050 G275X Day1 (snATAC-seq)
- GSM8705051 G275X Day5 (snATAC-seq)
- GSM8705052 WildType overexpression Day0 (snATAC-seq)
- GSM8705053 WildType overexpression Day1 (snATAC-seq)
- GSM8705054 WildType overexpression Day5 (snATAC-seq)
- GSM8705055 Empty Vector control (snATAC-seq)
- GSM8705056 Foxa1 FE255 (snATAC-seq)
- GSM8705057 Foxa1 G275X (snATAC-seq)
- GSM8705058 Foxa1 H247Y (snATAC-seq)
- GSM8705059 Foxa1 M253K (snATAC-seq)
- GSM8705060 Foxa1 WildType overexpression (snATAC-seq)
- GSM8705061 Empty Vector control in Pou2f1/Gata3 experiment (scRNA-seq)
- GSM8705062 Foxa1 G275X Gata3 KO in Pou2f1/Gata3 experiment (scRNA-seq)
- GSM8705063 Foxa1 G275X in Pou2f1/Gata3 experiment (scRNA-seq)
- GSM8705064 Foxa1 G275X Pou2f1 KO in Pou2f1/Gata3 experiment (scRNA-seq)
- GSM8705065 Empty Vector Day0 (scRNA-seq)
- GSM8705066 Empty Vector Day1 (scRNA-seq)
- GSM8705067 Empty Vector Day5 (scRNA-seq)
- GSM8705068 G275X Day0 (scRNA-seq)
- GSM8705069 G275X Day1 (scRNA-seq)
- GSM8705070 G275X Day5 (scRNA-seq)
- GSM8705071 WildType overexpression Day0 (scRNA-seq)
- GSM8705072 WildType overexpression Day1 (scRNA-seq)
- GSM8705073 WildType overexpression Day5 (scRNA-seq)
- GSM8705074 Empty Vector control (scRNA-seq)
- GSM8705075 Foxa1 FE255 (scRNA-seq)
- GSM8705076 Foxa1 G275X (scRNA-seq)
- GSM8705077 Foxa1 H247Y (scRNA-seq)
- GSM8705078 Foxa1 M253K (scRNA-seq)
- GSM8705079 Foxa1 WildType overexpression (scRNA-seq)
- GSE310057 A RiboCancer cell line panel reveals that CLL-associated Rps15 mutations translationally rewire transcription through codon-specific tRNA accommodation defects 48 samples shares transcription, mutations
- GSE326173 Nuclear receptor Nur77 resolves the inflammatory response of macrophages primarily by regulating expression of AP-1 transcription factors and their target genes [ChIP-seq] 42 samples shares transcription, receptor
- GSE324864 HP1B and H3K9me3 Regulate Olfactory Receptor Choice and 2 Transcriptional Identity [ChIP-seq] 28 samples shares transcription, receptor
- GSE267584 Enhancer-driven gene regulatory networks reveal transcription factors governing T cell adaptation and differentiation in the tumor microenvironment. 22 samples shares transcription, networks
- GSE278100 Foxa1-Mediated Chromatin Remodeling and Enhancer Reprogramming Promotes Gemcitabine Resistance in Pancreatic Cancer 54 samples shares foxa1
- GSE247845 FoxA1/2-dependent epigenomic reprogramming drives lineage switching in lung adenocarcinoma [RNA-Seq] 20 samples shares foxa1
- GSE248586 A conserved epithelial wound-like transcriptional program driven by FOSL1 underlies malignant progression of pancreatic ductal adenocarcinoma 57 samples shares transcription
- GSE272888 Dynamic transcriptional and epigenetic changes define postnatal tendon growth 54 samples shares transcription
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.