A hepatocyte-specific transcriptional program driven by Rela and Stat3 exacerbates experimental colitis in mice by modulating bile synthesis
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 untreated vs 3 × WT treated vs 3 × Rela and Stat3 knockout untreated vs 3 × Rela and Stat3 knockout treatedGroups 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
- A hepatocyte-specific transcriptional program driven by Rela and Stat3 exacerbates experimental colitis in mice by modulating bile synthesiseLife · 2024
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 GSE243307_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 PRJNA1017780 and SRA study SRP460720. 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.
- GSM7783135 WT untreated 1 WT untreated
- GSM7783136 WT untreated 2 WT untreated
- GSM7783137 WT untreated 3 WT untreated
- GSM7783138 WT treated 1 WT treated
- GSM7783139 WT treated 2 WT treated
- GSM7783140 WT treated 3 WT treated
- GSM7783141 Rela and Stat3 knockout untreated 1 Rela and Stat3 knockout…
- GSM7783142 Rela and Stat3 knockout untreated 2 Rela and Stat3 knockout…
- GSM7783143 Rela and Stat3 knockout untreated 3 Rela and Stat3 knockout…
- GSM7783144 Rela and Stat3 knockout treated 1 Rela and Stat3 knockout…
- GSM7783145 Rela and Stat3 knockout treated 2 Rela and Stat3 knockout…
- GSM7783146 Rela and Stat3 knockout treated 3 Rela and Stat3 knockout…
- GSE255180 Inhibiting CXCR4 Attenuates TOX-Programmed Exhausted Phenotype of CD8+ T cells via Regulating JAK2/STAT3 Pathway [RNA-Seq] 20 samples shares stat3, program
- GSE282695 STAT3 regulates pathogen control and clearance in macrophages by reprogramming inflammation-induced microbial defense response 18 samples shares stat3, program
- GSE338662 STAT3 SH2 Domain Aspartic Acid 661 Mutations Activate Immune Gene Programs 18 samples shares stat3, program
- GSE298411 RP105 exerts hepatoprotective effects in sepsis by modulating the SOCS2/JAK2/STAT3 signaling pathway 10 samples shares stat3, modulating
- GSE328134 Adipose tissue inflammation mediated by CCL19 overexpression exacerbates experimental periodontitis via elevated circulating saturated fatty acids and osteopontin in Western-diet-fed mice 36 samples shares experimental, exacerbates
- GSE305543 Hepatocyte-specific MET deletion exacerbates acetaminophen-induced hepatotoxicity in mice 18 samples shares hepatocyte-specific, exacerbates
- GSE293222 High-Fat Diet-Induced Liver-Gut Crosstalk Suppresses Autophagy and Exacerbates Colitis [colon] 12 samples shares exacerbates, colitis
- GSE262540 Myelin oligodendrocyte glycoprotein reactive Th17 cells drive Janus Kinase 1 dependent transcriptional reprogramming in astrocytes and alter cell surface cytokine receptor profiles during experimental autoimmune encephalomyelitis. 12 samples shares experimental, program
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.