Hepatic stellate cell single cell atlas reveals a highly similar activation process across liver disease aetiologies
Single-cell RNA-seq · human · 10 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 10 samples: 4 × HSC, quiescent, 0h, vs 3 × HSC, Activated, P1, vs 3 × HSC, Activated, P3,Groups 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 cell single cell atlas reveals a highly similar activation process across liver disease aetiologiesJHEP reports : innovation in hepatology · 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 GSE276915_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1159712 and SRA study SRP532019. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 3 replicated groups read from 10 sample titles; they account for 10 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.
- GSM8508897 HSC, quiescent, 0h, rep1 HSC, quiescent, 0h,
- GSM8508898 HSC, quiescent, 0h, rep2 HSC, quiescent, 0h,
- GSM8508899 HSC, quiescent, 0h, rep3 HSC, quiescent, 0h,
- GSM8508900 HSC, quiescent, 0h, rep4 HSC, quiescent, 0h,
- GSM8508901 HSC, Activated, P1, rep1 HSC, Activated, P1,
- GSM8508902 HSC, Activated, P3, rep1 HSC, Activated, P3,
- GSM8508903 HSC, Activated, P1, rep2 HSC, Activated, P1,
- GSM8508904 HSC, Activated, P3, rep2 HSC, Activated, P3,
- GSM8508905 HSC, Activated, P1, rep3 HSC, Activated, P1,
- GSM8508906 HSC, Activated, P3, rep3 HSC, Activated, P3,
- GSE341139 A conserved HAND2-BMP5-SMAD1/5/9 axis drives hepatic stellate cell activation and extracellular matrix overproduction in multiple fibrotic etiologies 10 samples shares activation, stellate, hepatic
- GSE341616 A conserved HAND2-HAND2_OE-SMAD1/5/9 axis drives hepatic stellate cell activation and extracellular matrix overproduction in multiple fibrotic etiologies 5 samples shares activation, stellate, hepatic
- GSE249826 Human-induced pluripotent Stem Cell-Derived Hepatic Stellate Cells in Liver Organoids: Maturation Promotion and Essential Role in Vascularization 26 samples shares stellate, hepatic
- GSE253493 RNA-Seq experiment of primary hepatic stellate cells (HSCs) and LX-2 cell line treated with TGFb 12 samples shares stellate, hepatic
- GSE320155 scRNA‑seq of human intra‑hepatic CD4⁺ T cells reveals unique Treg transcriptional identities and two steady‑state tissue‑adaptation programs across healthy and HCC liver samples 60 samples shares hepatic, across
- GSE244832 Multi-Modal Comparison of human Hepatic Stellate Cells identifies novel therapeutic targets for Metabolic Dysfunction-Associated Steatotic Liver Disease 36 samples shares stellate, hepatic
- GSE274680 Inflammation and lymphocyte activation during longitudinal progression to rheumatoid arthritis in at-risk individuals 243 samples shares activation
- GSE318645 Dual Immune Checkpoint Blockade Induces Distinct Systemic and Intratumoral Immune Activation in Recurrent Glioblastoma 226 samples shares activation
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.