Single-cell RNA sequencing of E18.5 mouse hindstomach epithelium and bulk RNA sequencing of its derived 3D organoids across distinct YAP activity states
Single-cell RNA-seq · mouse · 19 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
- 19 samples: 4 × Control sample vs 4 × YAP5SA sample vs 4 × Ctrl_diff vs 4 × YAP5SA_diffGroups 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 GSE318612_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 PRJNA1419307 and SRA study SRP670447. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 19 sample titles; they account for 16 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.
- GSM9484432 Control sample1 Control sample
- GSM9484433 Control sample2 Control sample
- GSM9484434 Control sample3 Control sample
- GSM9484435 Control sample4 Control sample
- GSM9484436 YAP5SA sample1 YAP5SA sample
- GSM9484437 YAP5SA sample2 YAP5SA sample
- GSM9484438 YAP5SA sample3 YAP5SA sample
- GSM9484439 YAP5SA sample4 YAP5SA sample
- GSM9484485 Ctrl_diff1 Ctrl_diff
- GSM9484486 Ctrl_diff2 Ctrl_diff
- GSM9484487 Ctrl_diff3 Ctrl_diff
- GSM9484488 Ctrl_diff4 Ctrl_diff
- GSM9484489 YAP5SA_diff1 YAP5SA_diff
- GSM9484490 YAP5SA_diff2 YAP5SA_diff
- GSM9484491 YAP5SA_diff3 YAP5SA_diff
- GSM9484492 YAP5SA_diff4 YAP5SA_diff
- GSM9484603 Ctrl_E18.5_Sto
- GSM9484604 YAP5SA_E18.5_Sto
- GSM9484605 YapKO_E18.5_Sto
- GSE262879 Single-cell RNA-sequencing of murine pancreatic tumors derived from the orthotopic transplantation of Smad4 wild-type (WT) or Smad4 knockout (KO) pancreatic ductal adenocarcinoma (PDAC) KPC organoids in nu/nu mice. 18 samples shares single-cell, organoids
- GSE249931 Temporal single-cell profiling of distinct mesenchymal, epithelial, endothelial, and immune cell lineages in the lung after injury 17 samples shares single-cell, distinct
- GSE265949 Effect of endothelial YAP/TAZ on neuroinflammation and outcome after ischemic stroke in mice 16 samples shares yap
- GSE327565 Sustained Yap/Taz activation promotes aberrant alveolar epithelial cell differentiation and drives persistent fibrotic remodeling 14 samples shares yap
- GSE294389 BMAL1 and YAP cooperate to hijack enhancers and promote inflammation in the aged epidermis 131 samples shares yap
- GSE192687 Single-cell RNAseq analysis of renal endothelial cells in murine diabetic nephropathy 5464 samples shares single-cell
- GSE301501 Extracellular matrix reprogramming by the YAP/TAZ/TGF-ß2 axis drives immune exclusion in cholangiocarcinoma models 45 samples shares yap
- GSE223115 Sex differences in Yap1 oncogene function in immune evasion 31 samples shares yap
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.