Selective identification of epigenetic regulators at methylated genomic sites by SelectID [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 14 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
- 14 samples: 7 conditions, mostly in duplicateGroups 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.
Read the full summary ↓
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 GSE275657_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 PRJNA1152514 and SRA study SRP528630. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 7 replicated groups read from 14 sample titles; they account for 14 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.
- GSM8482027 Hela, 6xsgL1-dCas9-Rep1 Hela, 6xsgL1-dCas9
- GSM8482028 Hela, 6xsgL1-dCas9-Rep2 Hela, 6xsgL1-dCas9
- GSM8482029 Hela, 6xsgL1-MBD-Rep1 Hela, 6xsgL1-MBD
- GSM8482030 Hela, 6xsgL1-MBD-Rep2 Hela, 6xsgL1-MBD
- GSM8482031 Hela, CHD4-Rep1 Hela, CHD4
- GSM8482032 Hela, CHD4-Rep2 Hela, CHD4
- GSM8482033 Hela, sg5UTR1-dCas9-Rep1 Hela, sg5UTR1-dCas9
- GSM8482034 Hela, sg5UTR1-dCas9-Rep2 Hela, sg5UTR1-dCas9
- GSM8482035 Hela, sg5UTR1-MBD-Rep1 Hela, sg5UTR1-MBD
- GSM8482036 Hela, sg5UTR1-MBD-Rep2 Hela, sg5UTR1-MBD
- GSM8482037 Hela, sg5UTR2-dCas9-Rep1 Hela, sg5UTR2-dCas9
- GSM8482038 Hela, sg5UTR2-dCas9-Rep2 Hela, sg5UTR2-dCas9
- GSM8482039 Hela, sg5UTR2-MBD-Rep1 Hela, sg5UTR2-MBD
- GSM8482040 Hela, sg5UTR2-MBD-Rep2 Hela, sg5UTR2-MBD
- GSE294235 Rheumatoid Arthritis circulating CD14+ monocytes are epigenetically primed [ChIP-seq] 75 samples shares epigenetic, chip-seq
- GSE296831 Epigenetic Context Defines the Transcriptional Activity of Canonical and Noncanonical NF-kappaB Signaling in Pancreatic Cancer [ChIP-Seq] 48 samples shares epigenetic, chip-seq
- GSE279410 Mitochondrial metabolism and epigenetic crosstalk drive the SASP (ChIP-seq) 30 samples shares epigenetic, chip-seq
- GSE261033 Epigenetic landscape, key transcriptional regulators, and in vivo identification of human Tr1 cells [scMultiome] 28 samples shares epigenetic, regulators
- GSE256495 Convergent Epigenetic Evolution Drives Relapse in Acute Myeloid Leukemia 195 samples shares epigenetic
- GSE279619 SETD2 loss-of-function uniquely sensitizes cells to epigenetic targeting of NSD1-directed H3K36 methylation. 124 samples shares epigenetic
- GSE339365 Genome-wide H3K4me3 profiling of circulating immune cells reveals dynamic epigenetic reprogramming during acute critical COVID-19 120 samples shares epigenetic
- GSE302930 Epigenetic Atlas of Bladder Cancer Reveals Master Transcription Factors and Risk-Associated Regulatory Elements in Luminal and Basal-Squamous Molecular Subtypes 92 samples shares epigenetic
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.