Single cell RNA sequencing analysis following Kmt2c/Kmt2d and Pten knockout in mouse stomach mucosa.
Single-cell RNA-seq · mouse · 10 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
- 10 samples: 3 × TP vs 3 × TCD vs 2 × TY vs 2 × TPCDGroups 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 GSE292432_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 PRJNA1238463 and SRA study SRP571746. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 4 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.
- GSM8858882 TY_1 TY
- GSM8858883 TY_2 TY
- GSM8858884 TP_1 TP
- GSM8858885 TP_2 TP
- GSM8858886 TP_3 TP
- GSM8858887 TCD_1 TCD
- GSM8858888 TCD_2 TCD
- GSM8858889 TCD_3 TCD
- GSM8858890 TPCD_1 TPCD
- GSM8858891 TPCD_2 TPCD
- GSE325799 KMT2C and KMT2D amplify GRHL2-driven enhancer activation [CUT&Tag] 80 samples shares kmt2c, kmt2d
- GSE237390 Loss of Kmt2c or Kmt2d drives brain metastasis via KDM6A-dependent upregulation of MMP3 [ChIP-seq] 54 samples shares kmt2c, kmt2d
- GSE205285 Mouse single positive thymocyte bulk RNA-seq from Kmt2d knockout and control littermates. 18 samples shares kmt2d, knockout
- GSE315829 Investigate changes in gene expression and enriched pathways in endothelial cells following Liver endothelial Heg1 knockout. 13 samples shares following, knockout
- GSE243869 KMT2C deficiency enhances HSC mobilization and granulocyte bias in response to G-CSF 78 samples shares kmt2c
- GSE335970 KMT2C catalytic activity regulates enhancer H3K4me1 and synaptic gene expression in cortical excitatory neurons [RNA-Seq] 39 samples shares kmt2c
- GSE328371 KMT2D depletion promote KRAS-induced pancreatic carcinogenesis independent of TP53 24 samples shares kmt2d
- GSE290849 Acute intervention reveals critical roles of BAF, KMT2D and p300 in MyoD binding on enhancers 143 samples shares kmt2d
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.