Effect of depletion of NR4A3 on vascular calcification [RNA-seq]
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 3 × VSMC, WT, Day14, vs 3 × VSMC, NR4A3KO, Day14, vs 3 × VSMC, WT, Day1, vs 3 × VSMC, NR4A3KO, Day1,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 GSE254077_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 PRJNA1068785 and SRA study SRP485944. 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.
- GSM8033088 VSMC, WT, Day14,rep1 VSMC, WT, Day14,
- GSM8033089 VSMC, WT, Day14,rep2 VSMC, WT, Day14,
- GSM8033090 VSMC, WT, Day14,rep3 VSMC, WT, Day14,
- GSM8033091 VSMC, NR4A3KO, Day14,rep1 VSMC, NR4A3KO, Day14,
- GSM8033092 VSMC, NR4A3KO, Day14,rep2 VSMC, NR4A3KO, Day14,
- GSM8033093 VSMC, NR4A3KO, Day14,rep3 VSMC, NR4A3KO, Day14,
- GSM8033094 VSMC, WT, Day1,rep1 VSMC, WT, Day1,
- GSM8033095 VSMC, WT, Day1,rep2 VSMC, WT, Day1,
- GSM8033096 VSMC, WT, Day1,rep3 VSMC, WT, Day1,
- GSM8033097 VSMC, NR4A3KO, Day1,rep1 VSMC, NR4A3KO, Day1,
- GSM8033098 VSMC, NR4A3KO, Day1,rep2 VSMC, NR4A3KO, Day1,
- GSM8033099 VSMC, NR4A3KO, Day1,rep3 VSMC, NR4A3KO, Day1,
- GSE98816 Single cell RNA-seq of mouse brain vascular transcriptomes 3186 samples shares vascular, rna-seq
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares vascular, rna-seq
- GSE52564 An RNA-Seq transcriptome and splicing database of neurons, glia, and vascular cells of the cerebral cortex 17 samples shares vascular, rna-seq
- GSE319252 Eicosapentaenoic Acid Reprograms Cerebrovascular Metabolism and Impairs Repair after Brain Injury, with Relevance to Chronic Traumatic Encephalopathy [mouse_brain_OnurE_RNA-seq] 12 samples shares vascular, rna-seq
- GSE280375 Soluble αKlotho interacts with Hsp90aa1 to inhibit the chaperone machinery-mediated Hif1α stabilization and alleviate CKD-induced vascular calcification 12 samples shares calcification, vascular
- GSE271355 Galectin 3-binding protein (Lgals3bp) depletion attenuates hepatic fibrosis by reducing transforming growth factor-β1 (TGF-β1) availability and inhibits hepatocarcinogenesis [PH RNA-seq] 12 samples shares depletion, rna-seq
- GSE321762 Vascular smooth muscle cell state trajectories mediate molecular mechanisms of coronary disease risk [scRNA-seq and scATAC-seq] 54 samples shares vascular, rna-seq
- GSE267466 Blocking Nuclear Receptor Nr4a3 Unlocks the Senescence Barrier to Promote Direct Cardiac Reprogramming 12 samples shares nr4a3
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.