Elevated GRHL2 imparts plasticity in estrogen receptor positive breast cancer cells [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 20 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
- Breast cancerThis series is part of our curated briefing on it.
- Samples
- 20 samples: 6 conditions, mostly in triplicateGroups 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
- Elevated GRHL2 Imparts Plasticity in ER-Positive Breast Cancer CellsCancers · 2024
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 GSE272059_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 PRJNA1134764 and SRA study SRP519404. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 20 sample titles; they account for 18 of them. 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.
- GSM8392225 24-doxrep2 24-dox
- GSM8392226 24doxrep2 24dox
- GSM8392227 48-doxrep2 48-dox
- GSM8392228 48doxrep2 48dox
- GSM8392229 72-doxrep2 72-dox
- GSM8392230 72doxrep2 72dox
- GSM8392231 24-doxrep3 24-dox
- GSM8392232 24doxrep3 24dox
- GSM8392233 48-doxrep3 48-dox
- GSM8392234 48doxrep3 48dox
- GSM8392235 72-doxrep3 72-dox
- GSM8392236 72doxrep3 72dox
- GSM8392237 24-doxrep4 24-dox
- GSM8392238 24doxrep4 24dox
- GSM8392239 48-doxrep4 48-dox
- GSM8392240 48doxrep4 48dox
- GSM8392241 72-doxrep4 72-dox
- GSM8392242 72doxrep4 72dox
- GSM8392243 24-doxrep3input
- GSM8392244 24doxrep3input
- GSE10885 An integromic analysis reveals that metaplastic carcinomas are distinct from basal-like tumors. 244 samples same disease briefing
- GSE10886 A Supervised Risk Predictor of Breast Cancer Based on Biological Subtypes 226 samples same disease briefing
- GSE11121 The humoral immune system has a key prognostic impact in node-negative breast cancer 200 samples same disease briefing
- GSE104193 Hypoxia-mediated translational activation of ITGB3 in breast cancer cells enhances TGF-β signalling and malignant features in vitro and in vivo 32 samples same disease briefing
- GSE104675 Role for the Transcriptional Activator ZRF1 in Breast Cancer Progression and Endocrine Resistance 6 samples same disease briefing
- GSE284956 Overcoming intrinsic mechanisms of cell cycle inhibitor resistance in estrogen receptor-positive (ER+) breast cancer 180 samples shares estrogen, receptor, positive
- GSE300130 Exploiting Androgen Receptor Cell Cycle Effects to Enhance CDK4/6 Inhibitor Efficacy in Estrogen Receptor Positive Metastatic Breast Cancer 61 samples shares estrogen, receptor, positive
- GSE210007 Estrogen Receptor alpha CUT&RUN analysis of estrogen receptor positive breast cancer cell lines MCF7 and UCD12 with 1h hormone E2 treatment 40 samples shares estrogen, receptor, positive
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.