Single-cell RNA sequencing of CD45 positive cells in spleen, bone marrow, colon and periphral blood from WT and Wnt5 DKO mice under DSS treatment
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: 8 distinct titles, 2 of them repeatedGroups 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 GSE255409_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 PRJNA1074818 and SRA study SRP489029. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 10 sample titles: 8 distinct titles with little repetition. 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.
- GSM8072127 WT Spleen CD45+ scRNAseq
- GSM8072128 Wnt5 DKO Spleen CD45+ scRNAseq
- GSM8072129 WT Blood CD45+ scRNAseq
- GSM8072130 Wnt5 DKO Blood CD45+ scRNAseq
- GSM8072131 WT BM CD45+ scRNAseq
- GSM8072132 Wnt5 DKO BM CD45+ scRNAseq
- GSM8072133 WT Colon CD45+ scRNAseq replicate 1
- GSM8072134 Wnt5 DKO Colon CD45+ scRNAseq replicate 1
- GSM8072135 WT Colon CD45+ scRNAseq replicate 2
- GSM8072136 Wnt5 DKO Colon CD45+ scRNAseq replicate 2
- GSE271340 Single-cell sequencing of CD45-positive and CD45 negative cells from the lungs of WT, Trex1 KO, Trex1;Ifngr1 DKO, and cGas-KI/+;Vav-icre mice 4 samples shares cd45, dko, single-cell, positive
- GSE300991 Single-cell RNA-seq analysis was performed on CD45-positive cells isolated from mouse mammary tumors. 3 samples shares cd45, single-cell, positive
- GSE338857 Single-cell transcriptomic analysis of GFP-positive and GFP-negative CD45-positive and CD45-negative cardiac cells isolated from TAC-operated REFLEX mice 2 samples shares cd45, single-cell, positive
- GSE297921 Single-cell sequencing of CD45+ cells isolated from nasal mucosa of mice 18 samples shares cd45, single-cell
- GSE267767 Myeloid lineage (CD45+ CD11b+ cells) analysis sorted from stromal vascular fraction of visceral and subcutaneous adiposetissue in mice in different diet conditions or after rosiglitazone treatment 16 samples shares cd45, treatment
- GSE250391 Effect of depletion of Rictor on gene expression during 3% DSS treatment of colonic epithelial cells. 16 samples shares dss, treatment
- GSE327985 Single-cell RNA sequencing of intratumoral CD45+ Immune cells in a murine cancer model under chronic unpredictable mild stress (CUMS) 12 samples shares cd45, single-cell
- GSE313761 Single-cell screens identify ADAM12 as a fibroblast checkpoint impeding anti-tumor immunity - scRNA-seq of Adam12CKO Mouse Model CD45- cells 11 samples shares cd45, single-cell
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.