Perk is dispensable for smooth muscle cell phenotype switching in atherosclerosis
RNA-seq (gene expression) · mouse · 40 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
- 40 samples: 40 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.
- Paper
- PERK Is Dispensable for Smooth Muscle Cell Phenotype Switching in AtherosclerosisArteriosclerosis, thrombosis, and vascular biology · 2026
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 GSE319971_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 PRJNA1425908 and SRA study SRP678566. 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 40 sample titles: 40 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.
- GSM9530630 Perk WT, ZsGreen1+, 16 weeks WD, GEX
- GSM9530631 Perk WT, ZsGreen1+, 16 weeks WD, CMO
- GSM9530632 Perk WT, ZsGreen1-, 16 weeks WD, GEX
- GSM9530633 Perk WT, ZsGreen1-, 16 weeks WD, CMO
- GSM9530634 Perk KO, ZsGreen1+, 16 weeks WD, GEX
- GSM9530635 Perk KO, ZsGreen1+, 16 weeks WD, CMO
- GSM9530636 Perk KO, ZsGreen1-, 16 weeks WD, GEX
- GSM9530637 Perk KO, ZsGreen1-, 16 weeks WD, CMO
- GSM9530638 Perk WT, ZsGreen1+, 0 week WD, GEX
- GSM9530639 Perk WT, ZsGreen1+, 0 week WD, CMO
- GSM9530640 Perk WT, ZsGreen1-, 0 week WD, GEX
- GSM9530641 Perk WT, ZsGreen1-, 0 week WD, CMO
- GSM9530642 Perk KO, ZsGreen1+, 0 week WD, GEX
- GSM9530643 Perk KO, ZsGreen1+, 0 week WD, CMO
- GSM9530644 Perk KO, ZsGreen1-, 0 week WD, GEX
- GSM9530645 Perk KO, ZsGreen1-, 0 week WD, CMO
- GSM9530646 Perk WT, ZsGreen1+, 8 weeks WD, GEX
- GSM9530647 Perk WT, ZsGreen1+, 8 weeks WD, CMO
- GSM9530648 Perk WT, ZsGreen1-, 8 weeks WD, GEX
- GSM9530649 Perk WT, ZsGreen1-, 8 weeks WD, CMO
- GSM9530650 Perk KO, ZsGreen1+, 8 weeks WD, GEX
- GSM9530651 Perk KO, ZsGreen1+, 8 weeks WD, CMO
- GSM9530652 Perk KO, ZsGreen1-, 8 weeks WD, GEX
- GSM9530653 Perk KO, ZsGreen1-, 8 weeks WD, CMO
- GSM9530654 Perk WT, ZsGreen1+, 12 weeks WD, GEX
- GSM9530655 Perk WT, ZsGreen1+, 12 weeks WD, CMO
- GSM9530656 Perk WT, ZsGreen1-, 12 weeks WD, GEX
- GSM9530657 Perk WT, ZsGreen1-, 12 weeks WD, CMO
- GSM9530658 Perk KO, ZsGreen1+, 12 weeks WD, GEX
- GSM9530659 Perk KO, ZsGreen1+, 12 weeks WD, CMO
- GSM9530660 Perk KO, ZsGreen1-, 12 weeks WD, GEX
- GSM9530661 Perk KO, ZsGreen1-, 12 weeks WD, CMO
- GSM9530662 Perk WT, ZsGreen1+, 4 weeks WD, GEX
- GSM9530663 Perk WT, ZsGreen1+, 4 weeks WD, CMO
- GSM9530664 Perk WT, ZsGreen1-, 4 weeks WD, GEX
- GSM9530665 Perk WT, ZsGreen1-, 4 weeks WD, CMO
- GSM9530666 Perk KO, ZsGreen1+, 4 weeks WD, GEX
- GSM9530667 Perk KO, ZsGreen1+, 4 weeks WD, CMO
- GSM9530668 Perk KO, ZsGreen1-, 4 weeks WD, GEX
- GSM9530669 Perk KO, ZsGreen1-, 4 weeks WD, CMO
- GSE260656 A smooth muscle cell gene-regulatory network critical for the development of advanced-stage and symptomatic atherosclerosis 23 samples shares atherosclerosis, smooth, muscle
- GSE246779 Single-cell multimodal profiling of atherosclerosis identifies CD200 as a cell surface lineage marker of vascular smooth muscle cells and their derived cells 24 samples shares atherosclerosis, smooth, muscle
- GSE239602 Single-cell and spatial transcriptomics uncovers the role of senescent vascular cells in pathological arterial remodeling during murine atherosclerosis 82 samples shares atherosclerosis
- GSE294362 Aged bone marrow myeloid and mesenchymal cells develop unique senescence phenotypes 80 samples shares phenotype
- GSE254396 Single-cell and bulk RNA sequencing of mouse atherosclerosis disease stage course [TRAP-seq] 71 samples shares atherosclerosis
- GSE337601 XCR1+ and CD11b+ migratory dendritic cells cooperate for the crosspriming of intratumoral CD8+ T cells with a tissue-resident memory phenotype [RNA-Seq] 36 samples shares phenotype
- GSE266231 Female Mice with an Xist Deletion in B Cells Can Develop Lupus-Associated Phenotypes 32 samples shares phenotype
- GSE266417 Female Mice with an Xist Deletion in B Cells Can Develop Lupus-Associated Phenotypes 28 samples shares phenotype
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.