Hepatic stellate cells control liver zonation and function via R-spondin 3
RNA-seq (gene expression) · human · 30 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
- Homo sapiens (human)
- Samples
- 30 samples: 30 samples, each with a distinct title — no replicated groupsGroups 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
- Hepatic stellate cells control liver zonation, size and functions via R-spondin 3Nature · 2025
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 GSE256398_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 PRJNA1079341 and SRA study SRP491171. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 30 sample titles: 30 distinct titles with little repetition. 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.
- GSM8097071 S1, Human, Alcohol-associated Cirrhosis
- GSM8097072 S2, Human, Alcohol-associated Cirrhosis
- GSM8097073 S3, Human, Alcohol-associated Cirrhosis
- GSM8097074 S4, Human, Alcohol-associated Cirrhosis
- GSM8097075 S5, Human, Alcohol-associated Hepatitis
- GSM8097076 S6, Human, Alcohol-associated Hepatitis
- GSM8097077 S7, Human, Alcohol-associated Hepatitis
- GSM8097078 S8, Human, Alcohol-associated Hepatitis
- GSM8097079 S9, Human, Alcohol-associated Hepatitis
- GSM8097080 S12, Human, Healthy Control
- GSM8097081 S13, Human, Healthy Control
- GSM8097082 S14, Human, Healthy Control
- GSM8097083 S15, Human, MASH Cirrhosis
- GSM8097084 S16, Human, MASH Cirrhosis
- GSM8097085 S17, Human, MASH Cirrhosis
- GSM8097086 S18, Human, MASH Cirrhosis
- GSM8097087 S19, Human, MASLD F0
- GSM8097088 S20, Human, MASLD F0
- GSM8097089 S21, Human, MASLD F0
- GSM8097090 S23, Human, Healthy Control
- GSM8097091 S27, Human, Healthy Control
- GSM8097092 S28, Human, Healthy Control
- GSM8097093 S33, Human, MASH Fibrosis F2-3
- GSM8097094 S35, Human, MASH Fibrosis F3
- GSM8097095 S36, Human, MASH Fibrosis F3
- GSM8097096 S38, Human, MASH Fibrosis F3
- GSM8648657 RA003, Mouse, LratCre+ Tdtomhomo
- GSM8648658 RA005, Mouse, Cre-negative Rspo3 floxed
- GSM8812541 Set1_RA001, Mouse, LratCre positive Rspo3 floxed
- GSM8812542 Set1_RA002, Mouse, LratCre negatie Rspo3 floxed
- GSE243107 O-GlcNAcylation controls pro-fibrotic transcriptional regulatory signaling in hepatic stellate cells 43 samples shares stellate, hepatic, control
- GSE275942 Estrogen Receptor 1 Signaling in Hepatic Stellate Cells Designates Resistance to Liver Fibrosis 11 samples shares stellate, hepatic, liver
- GSE288077 Metabolic dysfunction-associated steatotic liver disease may increase intrahepatic interferon gene signatures in patients with chronic hepatitis B 35 samples shares hepatic, liver
- GSE305923 exoWNT3A/RSPO1 improves HE to LPC differentiation, hepatic organoids growth, and different acute and chronic liver injuries. 72 samples shares hepatic, liver
- GSE341321 Vitamin B2 Sensing by the Nuclear Receptor AhR Reprograms Hepatic Metabolism [RNA-Seq] 100 samples shares hepatic
- GSE260966 Selective depletion of HBV-infected hepatocytes by class A capsid assembly modulators require high levels of intrahepatic HBV core protein 76 samples shares hepatic
- GSE326269 Hepatic HuR protects against atherosclerosis through bile acid production 38 samples shares hepatic
- GSE244784 Hepatic hypertension on-a-chip identifies GPR116 as a hydrostatic pressure mechanosensor to regulate vascular injury in cirrhosis 18 samples shares hepatic
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.