DDIT4 overexpression reshapes the histone modification landscape in human coronary artery smooth muscle cells: an H3K9ac and H3K27ac CUT&Tag study
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 12 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
- 12 samples: 3 × H3K9ac, control, vs 3 × H3K9ac, DDIT4_OE, vs 3 × H3K27ac, control, vs 3 × H3K27ac, DDIT4_OE,Groups 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 GSE311116_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 PRJNA1368702 and SRA study SRP648384. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM9317289 CUT&Tag of HCASMC: H3K9ac, control, replicate 1 H3K9ac, control,
- GSM9317290 CUT&Tag of HCASMC: H3K9ac, control, replicate 2 H3K9ac, control,
- GSM9317291 CUT&Tag of HCASMC: H3K9ac, control, replicate 3 H3K9ac, control,
- GSM9317292 CUT&Tag of HCASMC: H3K9ac, DDIT4_OE, replicate 1 H3K9ac, DDIT4_OE,
- GSM9317293 CUT&Tag of HCASMC: H3K9ac, DDIT4_OE, replicate 2 H3K9ac, DDIT4_OE,
- GSM9317294 CUT&Tag of HCASMC: H3K9ac, DDIT4_OE, replicate 3 H3K9ac, DDIT4_OE,
- GSM9317295 CUT&Tag of HCASMC: H3K27ac, control, replicate 1 H3K27ac, control,
- GSM9317296 CUT&Tag of HCASMC: H3K27ac, control, replicate 2 H3K27ac, control,
- GSM9317297 CUT&Tag of HCASMC: H3K27ac, control, replicate 3 H3K27ac, control,
- GSM9317298 CUT&Tag of HCASMC: H3K27ac, DDIT4_OE, replicate 1 H3K27ac, DDIT4_OE,
- GSM9317299 CUT&Tag of HCASMC: H3K27ac, DDIT4_OE, replicate 2 H3K27ac, DDIT4_OE,
- GSM9317300 CUT&Tag of HCASMC: H3K27ac, DDIT4_OE, replicate 3 H3K27ac, DDIT4_OE,
- GSE342612 Transcriptomic and H3K27ac chromatin responses of human microglia to acute PFOS exposure and recovery 36 samples shares h3k27ac, cut
- GSE327821 Single-molecule, single-cell profiling of linked chromatin states [Single_cell_CoCUT&Tag] 200 samples shares cut
- GSE339365 Genome-wide H3K4me3 profiling of circulating immune cells reveals dynamic epigenetic reprogramming during acute critical COVID-19 120 samples shares cut
- GSE289467 Intraindividual epigenetic heterogeneity underlying phenotypic subtypes of advanced prostate cancer [CUT&Tag] 50 samples shares cut
- GSE303343 A unified network systems approach uncovers a core program underlying T follicular helper cell differentiation [CUT&RUN] 48 samples shares cut
- GSE329231 Epigenomic profiling of H3K9me3 and H3K27ac across melanoma cell lines with different mutational backgrounds 45 samples shares h3k27ac
- GSE294275 Transcriptional analysis of direct NSD2 target genes in t(4;14) multiple myeloma reveals H3K36me2-dependent regulation and H3K27me3 antagonism [CUT&TAG] 40 samples shares cut
- GSE287902 BPTF regulstes androgen receptor activity by enhancing chromatin accessibility and stabilizing the AR-FOXA1 interaction [Cut&Run] 40 samples shares cut
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.