Single nuclei RNA-sequencing of normal and diseased liver
Single-nucleus RNA-seq · human · 40 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue). Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 40 samples
- 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
- Spatial transcriptomics of healthy and fibrotic human liver at single-cell resolutionNature communications · 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 GSE210077_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 PRJNA863623 and SRA study SRP388800. Searching any of these in the dataset finder brings you back here.
The grouping that defines any comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Sample titles run Liver-1 … Liver-41 and carry no group information.
- GSM6416542 Liver-1
- GSM6416545 Liver-2
- GSM6416547 Liver-3
- GSM6416549 Liver-4
- GSM6416552 Liver-5
- GSM6416553 Liver-6
- GSM6416556 Liver-7
- GSM6416558 Liver-8
- GSM6416560 Liver-9
- GSM6416563 Liver-10
- GSM6416565 Liver-11
- GSM6416567 Liver-13
- GSM6416569 Liver-14
- GSM6416571 Liver-15
- GSM6416574 Liver-16
- GSM6416576 Liver-17
- GSM6416578 Liver-18
- GSM6416581 Liver-19
- GSM6416582 Liver-20
- GSM6416587 Liver-22
- GSM6416589 Liver-23
- GSM6416592 Liver-24
- GSM7156103 Liver-21
- GSM8493737 Liver-25
- GSM8493738 Liver-26
- GSM8493739 Liver-27
- GSM8493740 Liver-28
- GSM8493741 Liver-29
- GSM8493742 Liver-30
- GSM8493743 Liver-31
- GSM8493744 Liver-32
- GSM8493745 Liver-33
- GSM8493746 Liver-34
- GSM8493747 Liver-35
- GSM8493748 Liver-36
- GSM9323718 Liver-37
- GSM9323719 Liver-38
- GSM9323720 Liver-39
- GSM9323721 Liver-40
- GSM9323722 Liver-41
- GSE308103 Single-nucleus RNA-sequencing (snRNA-seq) analysis of normal lung tissues, precursor lung lesions and invasive lung adenocarcinomas 75 samples shares rna-sequencing, normal
- GSE315534 Single-cell RNA sequencing of primary colorectal cancer, matched adjacent normal tissues, and paired liver metastases 15 samples shares normal, liver
- GSE221608 Transcriptome sequencing of normal intestinal mucosal tissues, paired primary CRC tissues and liver metastases lesions in participants of CRC 52 samples shares normal, liver
- GSE202379 Single Nuclei RNA-Seq to map progression of non-alcoholic fatty liver disease (NAFLD) in patients II 59 samples shares liver
- GSE263733 Single-cell transcriptome analysis reveals subtype-specific clonal evolution and microenvironmental changes in liver metastasis of pancreatic adenocarcinoma and their clinical implications 218 samples shares liver
- GSE293805 Single nucleus RNA-sequencing atlas of pediatric solid tumors 182 samples shares rna-sequencing
- GSE264680 Leveraging Single-Cell Sequencing to Classify and Characterize Tumor Subgroups in Bulk RNA-Sequencing Data 167 samples shares rna-sequencing
- GSE256141 Single cell transcriptional landscape of liver transplant rejection reveals tissue persistence of clonally expanded, treatment-resistant T cells 90 samples shares liver
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.