10X Single cell RNAseq (scRNAseq) analysis of intestinal epithelial cells (IECs) from murine small intestinal organoids treated with vehicle (DMSO) or LXR agonist GW3965.
Single-cell RNA-seq · mouse · 2 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
- 2 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
- Liver X receptor unlinks intestinal regeneration and tumorigenesisNature · 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 GSE180079_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 PRJNA746481 and SRA study SRP328287. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 2 more — browse all 2 samples with per-sample file links →
- GSE319685 10x 16plex flex scRNAseq with either uninfected or SARS-CoV-2 infected mouse lungs from WT or Ccr2-/- mice 8 samples shares 10x, scrnaseq
- GSE227726 Single cell analysis of epithelial (EPI), immune (IMM) and stromal cells (double negative, DN) cells from murine small intestine in steady state following LXR activation. 6 samples shares lxr, epithelial
- GSE230284 yHSC and oHSC 10X scRNAseq under ad lib, fasted, or fast refeed conditions to evaluate transcriptional impact of transient autophagy engagement in hematopoietic stem cells. 6 samples shares 10x, scrnaseq
- GSE322632 LIF induced tumor plasticity establishes an immunosuppressive myeloid niche in LKB1 mutant lung cancer [10x_scRNAseq] 6 samples shares 10x, scrnaseq
- GSE241606 Single-cell gene expression profiling of CD4+ T cells from small intestine lamina propria of mixed Bcl3-/- CD45.2+ and WT CD45.1+ bone marrow recipients [Mixed-bone-marrow_10XscRNAseq] 4 samples shares 10x, scrnaseq
- GSE241605 Single-cell gene expression profiling of CD4+ T cells from the murine small intestine lamina propria [steady-state_SI-Treg_10XscRNAseq] 4 samples shares 10x, scrnaseq
- GSE246768 Single nuclear RNA sequencing and 10X spatial transcriptomic profiling of murine tumors initiated by transplantation of engineered prostate organoids [snRNA-seq] 1 samples shares 10x, organoids
- GSE95315 Transcriptome analysis of single cells from the mouse dentate gyrus [10X] 5454 samples shares 10x
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.