MCF-7 cells and ER+ PDX model treated with GDC-9545
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 96 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
- 96 samples: 73 distinct titles, 19 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 GSE246366_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 PRJNA1032598 and SRA study SRP468644. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 96 sample titles: 73 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.
- GSM7867614 HCI-011 Vehicle rep1
- GSM7867615 HCI-011 Vehicle rep2
- GSM7867616 HCI-011 Vehicle rep3
- GSM7867617 HCI-011 GDC9545 rep1
- GSM7867618 HCI-011 GDC9545 rep2
- GSM7867619 HCI-011 GDC9545 rep3
- GSM7867620 HCI-003 Vehicle rep1
- GSM7867621 HCI-003 Vehicle rep2
- GSM7867622 HCI-003 Vehicle rep3
- GSM7867623 HCI-003 GDC9545 rep1
- GSM7867624 HCI-003 GDC9545 rep2
- GSM7867625 HCI-003 GDC9545 rep3
- GSM7867626 DMSO rep1
- GSM7867627 DMSO rep2
- GSM7867628 GDC9545 rep1
- GSM7867629 GDC9545 rep2
- GSM7867630 GNE858 rep1
- GSM7867631 GNE858 rep2
- GSM7867632 MCF-7, GATA3, ChIP, DMSO rep 1
- GSM7867633 MCF-7, GATA3, ChIP, DMSO rep 2
- GSM7867634 MCF-7, GATA3, ChIP, GDC-9545 rep 1
- GSM7867635 MCF-7, GATA3, ChIP, GDC-9545 rep 2
- GSM7867636 MCF-7, GATA3, ChIP, GNE-858 rep 1
- GSM7867637 MCF-7, GATA3, ChIP, GNE-858 rep 2
- GSM7867638 MCF-7, FOXA1, ChIP, DMSO rep 1
- GSM7867639 MCF-7, FOXA1, ChIP, DMSO rep 2
- GSM7867640 MCF-7, FOXA1, ChIP, GDC-9545 rep 1
- GSM7867641 MCF-7, FOXA1, ChIP, GDC-9545 rep 2
- GSM7867642 MCF-7, FOXA1, ChIP, GNE-858 rep 1
- GSM7867643 MCF-7, FOXA1, ChIP, GNE-858 rep 2
- GSM7867644 MCF-7, ERa, ChIP, DMSO rep 1
- GSM7867645 MCF-7, ERa, ChIP, DMSO rep 2
- GSM7867646 MCF-7, ERa, ChIP, GDC-9545 rep 1
- GSM7867647 MCF-7, ERa, ChIP, GDC-9545 rep 2
- GSM7867648 MCF-7, ERa, ChIP, GNE-858 rep 1
- GSM7867649 MCF-7, ERa, ChIP, GNE-858 rep 2
- GSM7867650 MCF-7, H3K27ac, ChIP, DMSO rep 1
- GSM7867651 MCF-7, H3K27ac, ChIP, DMSO rep 2
- GSM7867652 MCF-7, H3K27ac, ChIP, GDC-9545 rep 1
- GSM7867653 MCF-7, H3K27ac, ChIP, GDC-9545 rep 2
+ 56 more — browse all 96 samples with per-sample file links →
- GSE246364 RNA-seq data for MCF-7 cells with ER knockdown or GDC-9545 treatment 14 samples shares gdc-9545, mcf-7
- GSE265762 Individual RNA-seq for different prostate cancer cells and Lucap145.2 PDX treated by JQ1, AZD5153,ENZ or by FOXA1 and BRD4 gene knockdown 20 samples shares pdx, treated
- GSE338025 Multiome analysis of PDxOs (HCI-003, HCI-005, HCI-011) treated with a CDK4/6 inhibitor for 3 weeks 36 samples shares pdx, treated
- GSE222774 A Novel Humanized Immune Stroma PDX Model for Therapeutic Studies 36 samples shares pdx
- GSE247690 Cellular adaptation to cancer therapy along a resistance continuum [scRNA-seq: PDX] 17 samples shares pdx
- GSE301872 Therapy-persistent leukemia is selectively vulnerable to SLC23A1 restoration via targeting KHSRP (PDX samples from different disease statuses) 15 samples shares pdx
- GSE271134 Molecular Characterization of Chemoresistant Cell Populations Improves Risk Stratification and Therapy Response Prediction in Pediatric AML [pAML PDX Bulk RNA-seq] 14 samples shares pdx
- GSE300717 RNA-seq and ATAC-seq analysis of 5-azacytidine-treated HepG2 cells reveals epigenetic reactivation of BFL-1 and SQOR in hepatocellular carcinoma 17 samples shares treated
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.