Gene expression profile at single cell level of mouse liver in whole and fibrotic niche of the liver
Single-cell RNA-seq · mouse · 24 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Mus musculus (mouse)
- Samples
- 24 samples: 6 × OC, vs 5 × OF, vs 3 × YF,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.
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 GSE276072_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 PRJNA1154634 and SRA study SRP529750. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 3 replicated groups read from 24 sample titles; they account for 14 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.
- GSM8490518 OC, replicate 1 OC,
- GSM8490519 OC, replicate 2 OC,
- GSM8490520 OC, replicate 3 OC,
- GSM8490521 OC, replicate 4 OC,
- GSM8490522 OC, replicate 5 OC,
- GSM8490523 OC, replicate 6 OC,
- GSM8490524 OF, replicate 1 OF,
- GSM8490525 OF, replicate 2 OF,
- GSM8490526 OF, replicate 3 OF,
- GSM8490527 OF, replicate 4 OF,
- GSM8490528 OF, replicate 5 OF,
- GSM8490529 YF, replicate 1 YF,
- GSM8490530 YF, replicate 2 YF,
- GSM8490531 YF, replicate 3 YF,
- GSM8490552 OF, replicate 1, scATACseq
- GSM8490553 OF, replicate 2, scATACseq
- GSM8490554 YF, replicate 1, scATACseq
- GSM8490555 YF, replicate 2, scATACseq
- GSM8618756 YC, replicate 1, scRNAseq
- GSM8618757 YC, replicate 2, scRNAseq
- GSM8618758 YC, replicate 3, scRNAseq
- GSM8618759 YF, replicate 1, scRNAseq
- GSM8796763 CCl4, scRNA-seq
- GSM8796764 F-CCl4, scRNA-seq
- GSE228455 Gene expression profile at single cell level of monocytes sorted from C57BL/6J mouse ear tissue at 3 weeks post Leishmania major infection [scRNA-seq] 218 samples shares level
- GSE305975 Basal level of ATF4 promotes T cell readiness for activation-induced proliferation 29 samples shares level
- GSE230260 Gene expression profile at single cell level of cells isolated from the bone fracture gap and un-injured bone marrow in mouse osteotomy models 15 samples shares level
- GSE279918 Gene expression profile at single cell level of lungs of adult male and female C57BL/6 mice with andwithout high-fat diet-induced obesity 12 samples shares level
- GSE218339 Gene expression profile at single cell level of murine colon organoids harbouring colorectal cancer-associated driver mutations [scRNA-seq] 9 samples shares level
- GSE333781 Gene expression profile at single cell level of telogen and early anagen mouse hair follicle 2 samples shares level
- GSE255371 Characterization of cuprizone mouse model at single-cell and spatial transcriptomics level 86 samples shares level
- GSE267727 Transcriptome profiling of non-islet metabolic tissues in ~500 DO mouse liver, adipose, heart, and skeletal muscle tissue from mice fed high-fat, high-sugar diet [heart] 482 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.