Vascular smooth muscle cell state trajectories mediate molecular mechanisms of coronary disease risk
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 64 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
- 64 samples: 60 distinct titles, 2 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 GSE333685_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 PRJNA1472024 and SRA study SRP663442. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 3 samples read as cases, 38 as controls.
How we read this: Read from 64 sample titles: 60 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.
- GSM9457959 Mouse_aorta_sections
- GSM9458943 H3K27 acetylation ChIPseq
- GSM9458944 TEAD1 ChIPseq
- GSM9458945 CEBPB ChIPseq
- GSM9458946 siTEAD1 treated hTERT 2105 - 1
- GSM9458947 siTEAD1 treated hTERT 2105 - 2
- GSM9458948 siTEAD1 treated hTERT 2105 - 3
- GSM9458949 siNegative Control treated hTERT 2105 - 1
- GSM9458950 siNegative Control treated hTERT 2105 - 2
- GSM9458951 siNegative Control treated hTERT 2105 - 3
- GSM9550071 Control 0wk 1 mixed RNA
- GSM9550072 Control 0wk 2 mixed RNA
- GSM9550073 Control 3wk 1 mixed RNA
- GSM9550074 Control 3wk 2 mixed RNA
- GSM9550075 Control 5wk 1 mixed RNA
- GSM9550076 Control 5wk 2 mixed RNA
- GSM9550077 Control 5wk 3 tdt RNA
- GSM9550078 Control 5wk 3 nontdt RNA
- GSM9550079 Control 7wk 1 mixed RNA
- GSM9550080 Control 7wk 2 mixed RNA
- GSM9550081 Control 9wk 1 mixed RNA
- GSM9550082 Control 9wk 2 mixed RNA
- GSM9550083 Control 12wk 1 tdt RNA
- GSM9550084 Control 12wk 1 non-tdt RNA
- GSM9550085 Control 16wk 1 tdt RNA
- GSM9550086 Control 16wk 2 tdt RNA
- GSM9550087 Control 16wk 3 tdt RNA
- GSM9550088 Control 16wk 4 tdt RNA
- GSM9550089 Control 16wk 5 tdt RNA
- GSM9550090 Control 16wk 1 nontdt RNA
- GSM9550091 Control 16wk 2 nontdt RNA
- GSM9550092 Control 16wk 3 nontdt RNA
- GSM9550094 Control 16wk 4 nontdt RNA
- GSM9550095 Control 16wk 5 nontdt RNA
- GSM9550096 Tcf21KO 5wk 1 tdt RNA
- GSM9550097 Tcf21KO 5wk 1 nontdt RNA
- GSM9550098 Tcf21KO 12wk 1 tdt RNA
- GSM9550099 Tcf21KO 12wk 1 nontdt RNA
- GSM9550100 Tcf21KO 16wk 1 tdt RNA
- GSM9550101 Tcf21KO 16wk 2 tdt RNA
+ 24 more — browse all 64 samples with per-sample file links →
- GSE274229 Evolution of myeloid-mediated immunotherapy resistance in prostate cancer 52 samples shares mediate, state
- GSE224478 ETMR stem-like state and chemo-resistance are supported by perivascular cells at single-cell resolution 51 samples shares vascular, state
- GSE86532 N-Myc induces an EZH2-mediated transcriptional program driving Neuroendocrine Prostate Cancer 38 samples shares mediate, state
- GSE289247 Crosstalk between the polycomb repressive complex 2 and DNA methylation mediates neuroendocrine prostate cancer lineage plasticity [ChIP-Seq] 35 samples shares mediate, state
- GSE103550 Lung Cancer Cell-Mediated Skeletal Muscle Mitochondrial Dysfunction is Mitigated by 1a,25-Dihydroxyvitamin D3 24 samples shares mediate, muscle
- GSE284742 Injured epithelial cell states impact kidney allograft survival after T-cell-mediated rejection 21 samples shares mediate, state
- GSE224475 ETMR stem-like state and chemo-resistance are supported by perivascular cells at single-cell resolution (human+murine organoids subset) 21 samples shares vascular, state
- GSE284715 Injured epithelial cell states impact kidney allograft survival after T-cell-mediated rejection 14 samples shares mediate, state
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.