The effect of STING knockout on gene expression in cholestatic mice
RNA-seq (gene expression) · mouse · 20 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
- 20 samples: 5 × Sham_Wt vs 5 × Sham_KO vs 5 × BDL_Wt vs 5 × BDL_KOGroups 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 GSE284373_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 PRJNA1198895 and SRA study SRP551804. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 4 replicated groups read from 20 sample titles; they account for 20 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.
- GSM8682919 Sham_Wt_2223 Sham_Wt
- GSM8682920 Sham_Wt_2224 Sham_Wt
- GSM8682921 Sham_Wt_2227 Sham_Wt
- GSM8682922 Sham_Wt_2228 Sham_Wt
- GSM8682923 Sham_Wt_2229 Sham_Wt
- GSM8682924 Sham_KO_2347 Sham_KO
- GSM8682925 Sham_KO_2349 Sham_KO
- GSM8682926 Sham_KO_2350 Sham_KO
- GSM8682927 Sham_KO_2352 Sham_KO
- GSM8682928 Sham_KO_2353 Sham_KO
- GSM8682929 BDL_Wt_2233 BDL_Wt
- GSM8682930 BDL_Wt_2235 BDL_Wt
- GSM8682931 BDL_Wt_2236 BDL_Wt
- GSM8682932 BDL_Wt_2237 BDL_Wt
- GSM8682933 BDL_Wt_2240 BDL_Wt
- GSM8682934 BDL_KO_2359 BDL_KO
- GSM8682935 BDL_KO_2365 BDL_KO
- GSM8682936 BDL_KO_2248 BDL_KO
- GSM8682937 BDL_KO_2370 BDL_KO
- GSM8682938 BDL_KO_2371 BDL_KO
- GSE240884 The gene expression profiling of 3'2'-cCAMP signaling and 2'3'-cGAMP signaling in the BMDMs of WT and STING deficienc mice 24 samples shares sting
- GSE290224 Intermittent Fasting Reprograms Chromatin Accessibility to Modulate Gene Expression in Brain and Muscle 96 samples shares sting
- GSE271744 Bulk RNAseq of mononucleated cells isolated from resting and regenerating adult and aged skeletal mouse muscle 107 samples shares sting
- GSE241587 Pervasive nuclear envelope ruptures precede ECM signaling and disease onset without activating cGAS-STING in Lamin cardiomyopathy mice [sci-RNA-seq] 96 samples shares sting
- GSE331176 Phagosome-mediated activation of STING by purine and pyrimidine-based bacterial cyclic dinucleotides 380 samples shares sting
- GSE237084 Non-CG DNA methylation and MeCP2 stabilize repeated tuning of long genes that distinguish closely related neuron types [RNA-seq] 38 samples shares sting
- GSE294678 Dietary restriction mitigates vascular aging, modulates the cGAS-STING pathway and reverses macrophage-like VSMC phenotypes in progeroid DNA-repair-deficient Ercc1Δ/- mice 29 samples shares sting
- GSE267280 Short-read RNA-Seq experiment of major tissues from wild-type mice under fasting and fed treatments 16 samples shares sting
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.