Epigenetic disruption of the RARgamma complex impairs its function to bookmark AR enhancer interactions required for enzalutamide sensitivity in prostate cancer
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 139 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)
- Topic
- Prostate cancerThis series is part of our curated briefing on it.
- Samples
- 139 samples: 112 distinct titles, 14 of them repeatedGroups 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 GSE255154_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 PRJNA1073859 and SRA study SRP487218. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 139 sample titles: 112 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.
- GSM8056728 24.LNCaP.Ct.3
- GSM8056729 24.LNCaP.Ct.2
- GSM8056730 24.LNCaP.Ct.1
- GSM8056731 24.LNCaP.miR96.3
- GSM8056732 24.LNCaP.miR96.2
- GSM8056733 24.LNCaP.miR96.1
- GSM8056734 24.HPr1AR.Ct.3
- GSM8056735 24.HPr1AR.Ct.2
- GSM8056736 24.HPr1AR.Ct.1
- GSM8056737 24.HPr1AR.miR96.3
- GSM8056738 24.HPr1AR.miR96.2
- GSM8056739 24.HPr1AR.miR96.1
- GSM8056740 48.LNCaP.Ct.3
- GSM8056741 48.LNCaP.Ct.2
- GSM8056742 48.LNCaP.Ct.1
- GSM8056743 48.LNCaP.miR96.3
- GSM8056744 48.LNCaP.miR96.2
- GSM8056745 48.LNCaP.miR96.1
- GSM8056746 48.HPr1AR.Ct.3
- GSM8056747 48.HPr1AR.Ct.2
- GSM8056748 48.HPr1AR.Ct.1
- GSM8056749 48.HPr1AR.miR96.3
- GSM8056750 48.HPr1AR.miR96.2
- GSM8056751 48.HPr1AR.miR96.1
- GSM8064765 HPR_C.C.1
- GSM8064766 HPR_C.C.2
- GSM8064767 HPR_C.C.3
- GSM8064768 HPR_C.m6.1
- GSM8064769 HPR_C.m6.2
- GSM8064770 HPR_C.m6.3
- GSM8064771 LNCaP_C.C.1
- GSM8064772 LNCaP_C.C.2
- GSM8064773 LNCaP_C.C.3
- GSM8064774 LNCaP_C.m6.1
- GSM8064775 LNCaP_C.m6.2
- GSM8064776 LNCaP_C.m6.3
- GSM8064777 RV1_C.C.1
- GSM8064778 RV1_C.C.3
- GSM8064779 RV1_C.C.2
- GSM8064780 RV1_C.m6.3
+ 99 more — browse all 139 samples with per-sample file links →
- GSE71008 Plasma extracellular RNA profiles in healthy and cancer patients 192 samples same disease briefing
- GSE115501 RNA sequencing on circulating tumor cells from prostate cancer patients 136 samples same disease briefing
- GSE222467 The RNA binding proteins LARP4A and LARP4B promote tumour growth and metastasis in prostate cancer and osteosarcoma 12 samples same disease briefing
- GSE242541 ONECUT2 is a druggable driver of luminal to basal breast cancer plasticity 12 samples same disease briefing
- GSE300947 A novel six-biomarker panel identified from male breast cancer-associated fibroblasts demonstrates prognostic power for prostate tumors 6 samples same disease briefing
- GSE120181 Human prostate cancer cell line, 22Rv1: Control vs. luteolin treatment 2 samples same disease briefing
- GSE281743 Epigenetic Subtypes of High-Grade T1 Bladder Cancer Reveal Intra-Tumor Heterogeneity and Distinct Interactions with Tumor Microenvironment 41 samples shares interactions, epigenetic
- GSE319448 DNA methylation stochasticity is linked to transcriptional variability and identifies convergent epigenetic disruption across genetically-defined subtypes of AML [CellCulture_WGBS] 12 samples shares epigenetic, disruption
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.