Fibroblast-derived CCL2 function in skin infection
Single-cell RNA-seq · mouse · 13 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Mus musculus (mouse)
- Samples
- 13 samples: 3 × Bulk Control vs 3 × Bulk WT vs 3 × Bulk CCL2KO vs 2 × PDGFRa_Ccl2_skinGroups 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 GSE330279_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 PRJNA1463268 and SRA study SRP698376. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 11 samples.
How we read this: 4 replicated groups read from 13 sample titles; they account for 11 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.
- GSM9722867 Bulk Control 1 Bulk Control
- GSM9722868 Bulk Control 2 Bulk Control
- GSM9722869 Bulk Control 3 Bulk Control
- GSM9722870 Bulk WT 1 Bulk WT
- GSM9722871 Bulk WT 2 Bulk WT
- GSM9722872 Bulk WT 3 Bulk WT
- GSM9722873 Bulk CCL2KO 1 Bulk CCL2KO
- GSM9722874 Bulk CCL2KO 2 Bulk CCL2KO
- GSM9722875 Bulk CCL2KO 3 Bulk CCL2KO
- GSM9722876 PDGFRa_Ccl2_skin_1 PDGFRa_Ccl2_skin
- GSM9722877 PDGFRa_Ccl2_skin_2 PDGFRa_Ccl2_skin
- GSM9722878 PDGFRa_Ccl2_skin_SA
- GSM9722879 Spatial_A
- GSE288338 EYA3 regulation of NF-κB and CCL2 suppresses cytotoxic NK cells in the pre-metastatic niche to promote TNBC metastasis 18 samples shares ccl2
- GSE304787 Therapeutic targeting of lipidated amino acid deficiency ameliorates MASH via a PPARα/CCL2 axis 14 samples shares ccl2
- GSE300219 Macrophage-derived Chemokine (C-C motif) ligand 24 (CCL24) promotes cardiac fibrosis 14 samples shares ccl2
- GSE174676 Metabolic rewiring tunes dermal macrophages in staphylococcal skin infection 36 samples shares skin
- GSE174674 Metabolic rewiring tunes dermal macrophages in staphylococcal skin infection [RNA-seq dataset 1] 24 samples shares skin
- GSE286908 Bacterial skin infection imprints bone marrow eosinophils to promote allergic skin-lung crosstalk [Quant_seq] 24 samples shares skin
- GSE174675 Metabolic rewiring tunes dermal macrophages in staphylococcal skin infection [RNA-seq dataset 2] 12 samples shares skin
- GSE297255 Sandfly saliva reprogrammes skin fibroblasts to enhance arbovirus infection 11 samples shares skin
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.