PRDM16 controls smooth muscle cell fate in atherosclerosis [RNA-Seq]
RNA-seq (gene expression) · mouse · 16 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 16 samples: 5 × Aorta, Tagln Cre -, vs 5 × Aorta, Tagln Cre +, vs 3 × Aorta, Tamoxifen Treated, Myh11 CreER -, vs 2 × Aorta, Tamoxifen Treated, Myh11 CreER +,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.
- Paper
- PRDM16 controls smooth muscle cell fate in atherosclerosisbioRxiv : the preprint server for biology · 2025
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 GSE305275_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1304974 and SRA study SRP608472. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 15 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.
- GSM9168111 Aorta, Tamoxifen Treated, Myh11 CreER +, Rep 1 Aorta, Tamoxifen Treate…
- GSM9168112 Aorta, Tamoxifen Treated, Myh11 CreER +, Rep 2 Aorta, Tamoxifen Treate…
- GSM9168113 Aorta, Tamoxifen Treated, Myh11 CreER + , Rep 3
- GSM9168114 Aorta, Tamoxifen Treated, Myh11 CreER -, Rep 1 Aorta, Tamoxifen Treate…
- GSM9168115 Aorta, Tamoxifen Treated, Myh11 CreER -, Rep 2 Aorta, Tamoxifen Treate…
- GSM9168116 Aorta, Tamoxifen Treated, Myh11 CreER -, Rep 3 Aorta, Tamoxifen Treate…
- GSM9168117 Aorta, Tagln Cre -, Rep 1 Aorta, Tagln Cre -,
- GSM9168118 Aorta, Tagln Cre -, Rep 2 Aorta, Tagln Cre -,
- GSM9168119 Aorta, Tagln Cre -, Rep 3 Aorta, Tagln Cre -,
- GSM9168120 Aorta, Tagln Cre -, Rep 4 Aorta, Tagln Cre -,
- GSM9168121 Aorta, Tagln Cre -, Rep 5 Aorta, Tagln Cre -,
- GSM9168122 Aorta, Tagln Cre +, Rep 1 Aorta, Tagln Cre +,
- GSM9168123 Aorta, Tagln Cre +, Rep 2 Aorta, Tagln Cre +,
- GSM9168124 Aorta, Tagln Cre +, Rep 3 Aorta, Tagln Cre +,
- GSM9168125 Aorta, Tagln Cre +, Rep 4 Aorta, Tagln Cre +,
- GSM9168126 Aorta, Tagln Cre +, Rep 5 Aorta, Tagln Cre +,
- GSE260656 A smooth muscle cell gene-regulatory network critical for the development of advanced-stage and symptomatic atherosclerosis 23 samples shares atherosclerosis, smooth, muscle
- GSE246799 Epigenetic recording of stimulation history reveals BLIMP1-BACH2 balance in determining memory B cell fate upon recall challenge (RNA-Seq) 24 samples shares rna-seq, fate
- GSE275143 The Fosl1-Kdm6b Axis Controls Skeletal Muscle Fibrosis by Regulating Histone H3K27me3 [HiCAR] 12 samples shares controls, muscle
- GSE297388 Spatial transcriptomics and scRNA-sequencing on gastrocnemius muscle form B6-mdx and D2-mdx mice 8 samples shares rna-seq, muscle
- GSE326100 scRNA-seq of mouse cochlea organoid cells 768 samples shares rna-seq
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares rna-seq
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares rna-seq
- GSE239602 Single-cell and spatial transcriptomics uncovers the role of senescent vascular cells in pathological arterial remodeling during murine atherosclerosis 82 samples shares atherosclerosis
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.