ChIP-Seq of MYC in MCF-7 cells with EPIC1 knockdown or overexpression.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 10 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
- 10 samples: 10 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 GSE216922_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 PRJNA896185 and SRA study SRP405499. 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 10 sample titles: 10 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.
- GSM6697807 ChIP-Seq of MYC, siControl, Input
- GSM6697808 ChIP-Seq of MYC, siEPIC1-A, Input
- GSM6697809 ChIP-Seq of MYC, siEPIC1-B, Input
- GSM6697810 ChIP-Seq of MYC, siControl, IP
- GSM6697811 ChIP-Seq of MYC, siEPIC1-A, IP
- GSM6697812 ChIP-Seq of MYC, siEPIC1-B, IP
- GSM6697813 ChIP-Seq of MYC, overexperssing control, Input
- GSM6697814 ChIP-Seq of MYC, overexpreesing EPIC1, Input
- GSM6697815 ChIP-Seq of MYC, overexperssing control, IP
- GSM6697816 ChIP-Seq of MYC, overexpreesing EPIC1, IP
- GSE252695 RNA-dependent ChIP-Seq (rChIP-Seq) of MYC and TBP in MCF-7 cells 10 samples shares mcf-7, myc, chip-seq
- GSE302076 The novel RNA polymerase I transcription inhibitor PMR-116 exploits a critical therapeutic vulnerability in a broad-spectrum of high MYC malignancies [ChIP-Seq] 45 samples shares myc, chip-seq
- GSE246361 MCF-7 RPMI ERa and FOXA1 ChIP-seq in GDC-9545 and GNE-858 18 samples shares mcf-7, chip-seq
- GSE246364 RNA-seq data for MCF-7 cells with ER knockdown or GDC-9545 treatment 14 samples shares mcf-7, knockdown
- GSE250076 GPS2 and HDAC3 ChIP-Seq and RNA-Seq in GPS2-KO MCF-7 14 samples shares mcf-7, chip-seq
- GSE278073 Targeting VRK2 Enhances the Efficacy of Anti-PD-1 Therapy in Hepatocellular Carcinoma by Reducing Direct Phosphorylation and Stability of MYC: CUT-TAG sequencing for MYC in hepatocellular carcinoma cells 16 samples shares myc
- GSE280280 Reprogramming of Cellular Plasticity via ETS and MYC Core-regulatory circuits During Response to MAPK Inhibition in BRAF-mutant colorectal cancer 36 samples shares myc
- GSE293201 Ectopic MYC Expression Reprograms Epigenetic Landscapes and Transcription Factor Networks to Drive Differentiation Block and Malignant Transformation in AML [ATAC-seq] 35 samples shares myc
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.