Effect of endothelial cell-specific TET2 knockout on mouse lung endothelial cell transcriptome of chow-fed and high fat diet-fed mice
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 × WT_CHOW vs 3 × KO_CHOW vs 3 × WT_HFD vs 3 × KO_HFDGroups 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
- TET2 has endothelial-specific roles in interferon responses that are dysregulated by hyperglycemia in vitro and in vivoThe Journal of biological chemistry · 2025
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 GSE232888_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 PRJNA974373 and SRA study SRP438604. 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.
- GSM7385458 WT_CHOW bio rep 1 WT_CHOW
- GSM7385459 WT_CHOW bio rep 2 WT_CHOW
- GSM7385460 WT_CHOW bio rep 3 WT_CHOW
- GSM7385461 KO_CHOW bio rep 1 KO_CHOW
- GSM7385462 KO_CHOW bio rep 2 KO_CHOW
- GSM7385463 KO_CHOW bio rep 3 KO_CHOW
- GSM7385464 WT_HFD bio rep 1 WT_HFD
- GSM7385465 WT_HFD bio rep 2 WT_HFD
- GSM7385466 WT_HFD bio rep 3 WT_HFD
- GSM7385467 KO_HFD bio rep 1 KO_HFD
- GSM7385468 KO_HFD bio rep 2 KO_HFD
- GSM7385469 KO_HFD bio rep 3 KO_HFD
- GSE317602 Lung gene expression in WT and estrogen receptor alpha and beta knockout mice exposed to house dust mites 72 samples shares knockout, lung
- GSE249931 Temporal single-cell profiling of distinct mesenchymal, epithelial, endothelial, and immune cell lineages in the lung after injury 17 samples shares endothelial, lung
- GSE277610 Endothelial PD-L1 brakes CD8+ T cell exhaustion, empowering anti-tumor immunity in non-small cell lung cancer 17 samples shares endothelial, lung
- GSE289309 RNA-seq profiling of mouse lung endothelial cells to investigate ENG-dependent and ENG-independent BMP9-induced target genes. 16 samples shares endothelial, lung
- GSE260604 Ageing is Associated with an Insufficient Early Inflammatory Response of Lung Endothelial Cells in SARS-CoV-2 Infection 16 samples shares endothelial, lung
- GSE315829 Investigate changes in gene expression and enriched pathways in endothelial cells following Liver endothelial Heg1 knockout. 13 samples shares endothelial, knockout
- GSE288210 Comparative gene expression profiling of RNA-seq data from islets of β-cell-specific ZZEF1 knockout mice (βZKO-Mip) and their littermate controls, treated with either azoramide or DMSO. 11 samples shares cell-specific, knockout
- GSE298064 Metabolic control of innate immune activation in TET2-mutant clonal hematopoiesis 26 samples shares tet2
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.