Thyroid hormone receptor beta1 action in the resolution of liver fibrosis
RNA-seq (gene expression) · mouse · 32 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
- 32 samples: 8 conditions, mostly with about 4 replicates eachGroups 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.
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 GSE223882_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 PRJNA928717 and SRA study SRP419015. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 32 samples.
How we read this: 8 replicated groups read from 32 sample titles; they account for 32 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.
- GSM6971632 KO_T3_CCL4_1 KO_T3_CCL4
- GSM6971633 KO_T3_CCL4_2 KO_T3_CCL4
- GSM6971634 KO_T3_CCL4_3 KO_T3_CCL4
- GSM6971635 KO_T3_CCL4_4 KO_T3_CCL4
- GSM6971636 WT_T3_CCL4_1 WT_T3_CCL4
- GSM6971637 WT_T3_CCL4_2 WT_T3_CCL4
- GSM6971638 WT_T3_CCL4_3 WT_T3_CCL4
- GSM6971639 WT_T3_CCL4_4 WT_T3_CCL4
- GSM6971640 KO_T3_Oil_1 KO_T3_Oil
- GSM6971641 KO_T3_Oil_2 KO_T3_Oil
- GSM6971642 KO_T3_Oil_3 KO_T3_Oil
- GSM6971643 KO_T3_Oil_4 KO_T3_Oil
- GSM6971644 WT_T3_Oil_1 WT_T3_Oil
- GSM6971645 WT_T3_Oil_2 WT_T3_Oil
- GSM6971646 WT_T3_Oil_3 WT_T3_Oil
- GSM6971647 WT_T3_Oil_4 WT_T3_Oil
- GSM6971648 KO_PBS_CCL4_1 KO_PBS_CCL4
- GSM6971649 KO_PBS_CCL4_2 KO_PBS_CCL4
- GSM6971650 KO_PBS_CCL4_3 KO_PBS_CCL4
- GSM6971651 KO_PBS_CCL4_4 KO_PBS_CCL4
- GSM6971652 WT_PBS_CCL4_1 WT_PBS_CCL4
- GSM6971653 WT_PBS_CCL4_2 WT_PBS_CCL4
- GSM6971654 WT_PBS_CCL4_3 WT_PBS_CCL4
- GSM6971655 WT_PBS_CCL4_4 WT_PBS_CCL4
- GSM6971656 KO_PBS_Oil_1 KO_PBS_Oil
- GSM6971657 KO_PBS_Oil_2 KO_PBS_Oil
- GSM6971658 KO_PBS_Oil_3 KO_PBS_Oil
- GSM6971659 KO_PBS_Oil_4 KO_PBS_Oil
- GSM6971660 WT_PBS_Oil_1 WT_PBS_Oil
- GSM6971661 WT_PBS_Oil_2 WT_PBS_Oil
- GSM6971662 WT_PBS_Oil_3 WT_PBS_Oil
- GSM6971663 WT_PBS_Oil_4 WT_PBS_Oil
- GSE328655 A high-resolution, sex-stratified atlas of transcriptional and alternative splicing dynamics in the fasting mouse liver. 80 samples shares resolution, liver
- GSE279351 Liver-specific inactivation of Cideb improves metabolic profiles and ameliorates steatohepatitis and fibrosis in animal models for MASH 45 samples shares fibrosis, liver
- GSE307419 Pulmonary fibroblast subsets demonstrate differentially enriched signaling pathways during fibrosis resolution and repair 26 samples shares resolution, fibrosis
- GSE269328 Glucagon receptor agonism and treatment withdrawal effect on liver transcriptomes of diet-induced obese mice 24 samples shares receptor, liver
- GSE292193 RNA-Seq Reveals Enhanced Inflammation and Fibrosis in Alcohol-Induced Liver Injury of Apoe Knockout Mice 18 samples shares fibrosis, liver
- GSE274973 Mouse liver assembloids model periportal architecture and biliary fibrosis [scRNA-seq] 13 samples shares fibrosis, liver
- GSE295293 Single-cell fixed RNAseq of liver fibrosis progression and regression 9 samples shares fibrosis, liver
- GSE316171 Fibroblast Growth Factor Receptor Signaling in Maturing Osteoblasts Controls Cell-Matrix Interactions Critical for Osteocyte Survival 8 samples shares receptor, action
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.