ChIP-seq for beta-catenin, EZH2, EED, KMT2B, H3K4me3, H3K27me3 and sequential chipseq
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 148 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)
- Topic
- Prostate cancerThis series is part of our curated briefing on it.
- Samples
- 148 samples: 147 distinct titles, 1 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 GSE294966_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 PRJNA1252116 and SRA study SRP579512. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 148 sample titles: 147 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.
- GSM8933096 42D_ctnnb1_Vehicle
- GSM8933097 42D_ctnnb1_LGK974
- GSM8933098 42D_Input
- GSM8933099 42D_EZH2_Vehicle
- GSM8933100 42D_EZH2_LGK974
- GSM8933101 42D_EZH2_EPZ6438
- GSM8933102 42D_EED_Vehicle
- GSM8933103 42D_EED_LGK974
- GSM8933104 42D_EED_EED226
- GSM8933105 42D_H3K4me3_Vehicle-for-lgk
- GSM8933106 42D_H3K4me3_LGK974
- GSM8933107 42D_H3K4me3_vehicle-for-EPZ6438
- GSM8933108 42D_H3K4me3-EPZ6438
- GSM8933109 42D_H3K27me3_Vehicle-for-lgk
- GSM8933110 42D_H3K27me3_LGK974
- GSM8933111 42D_H3K27me3_vehicle-for-EPZ6438
- GSM8933112 42D_H3K27me3-EPZ6438
- GSM8933113 42D_sequential_vehicle
- GSM8933114 42D_sequential_lgk974
- GSM8933115 77ENZR_H3K4me3
- GSM8933116 77ENZR_H3K27me3
- GSM8933117 77ENZR_sequential
- GSM8933118 77ENZR_Input
- GSM8933119 LNCaP_H3K4me3
- GSM8933120 LNCaP_H3K27me3
- GSM8933121 LNCaP_Input
- GSM8933122 1472_H3K4me3
- GSM8933123 1481_H3K4me3
- GSM8933124 1483_H3K4me3
- GSM8933125 1485_H3K4me3
- GSM8933126 1472_H3K27me3
- GSM8933127 1481_H3K27me3
- GSM8933128 1483_H3K27me3
- GSM8933129 1485_H3K27me3
- GSM8933130 1472_Input
- GSM8933131 1481_Input
- GSM8933132 1483_Input
- GSM8933133 1485_Input
- GSM8933134 1472_sequential
- GSM8933135 1481_sequential
+ 108 more — browse all 148 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
- GSE218715 EZH2 gain-of-function mutations distort H3K27me3 landscapes and transform transcriptional responses to PRC2 inhibition [RNA-seq] 88 samples shares h3k27me3, ezh2
- GSE255572 Chromatin remodeler CHD7 regulates neurogenic gene expression via controlling chromatin accessibility and modifications of histone marks H3K27me3 and H3K4me3 34 samples shares h3k27me3, h3k4me3
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.