Microglia regulate cortical remyelination via ΤNFR1-dependent phenotypic polarization [scRNA-Seq]
Single-cell RNA-seq · mouse · 45 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
- 45 samples: 15 × Cortex, naïve, vs 15 × Cortex, saline CPZ3, vs 15 × Cortex, XPro1595 CPZ3,Groups 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.
- Paper
- Microglia regulate cortical remyelination via TNFR1-dependent phenotypic polarizationCell reports · 2024
Read the full summary ↓
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 GSE278199_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 PRJNA1166072 and SRA study SRP535237. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 45 samples.
How we read this: 3 replicated groups read from 45 sample titles; they account for 45 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.
- GSM8541677 Cortex, naïve, rep1 Cortex, naïve,
- GSM8541678 Cortex, naïve, rep2 Cortex, naïve,
- GSM8541679 Cortex, naïve, rep3 Cortex, naïve,
- GSM8541680 Cortex, naïve, rep4 Cortex, naïve,
- GSM8541681 Cortex, naïve, rep5 Cortex, naïve,
- GSM8541682 Cortex, naïve, rep6 Cortex, naïve,
- GSM8541683 Cortex, naïve, rep7 Cortex, naïve,
- GSM8541684 Cortex, naïve, rep8 Cortex, naïve,
- GSM8541685 Cortex, naïve, rep9 Cortex, naïve,
- GSM8541686 Cortex, naïve, rep10 Cortex, naïve,
- GSM8541687 Cortex, naïve, rep11 Cortex, naïve,
- GSM8541688 Cortex, naïve, rep12 Cortex, naïve,
- GSM8541689 Cortex, naïve, rep13 Cortex, naïve,
- GSM8541690 Cortex, naïve, rep14 Cortex, naïve,
- GSM8541691 Cortex, naïve, rep15 Cortex, naïve,
- GSM8541692 Cortex, saline CPZ3, rep1 Cortex, saline CPZ3,
- GSM8541693 Cortex, saline CPZ3, rep2 Cortex, saline CPZ3,
- GSM8541694 Cortex, saline CPZ3, rep3 Cortex, saline CPZ3,
- GSM8541695 Cortex, saline CPZ3, rep4 Cortex, saline CPZ3,
- GSM8541696 Cortex, saline CPZ3, rep5 Cortex, saline CPZ3,
- GSM8541697 Cortex, saline CPZ3, rep6 Cortex, saline CPZ3,
- GSM8541698 Cortex, saline CPZ3, rep7 Cortex, saline CPZ3,
- GSM8541699 Cortex, saline CPZ3, rep8 Cortex, saline CPZ3,
- GSM8541700 Cortex, saline CPZ3, rep9 Cortex, saline CPZ3,
- GSM8541701 Cortex, saline CPZ3, rep10 Cortex, saline CPZ3,
- GSM8541702 Cortex, saline CPZ3, rep11 Cortex, saline CPZ3,
- GSM8541703 Cortex, saline CPZ3, rep12 Cortex, saline CPZ3,
- GSM8541704 Cortex, saline CPZ3, rep13 Cortex, saline CPZ3,
- GSM8541705 Cortex, saline CPZ3, rep14 Cortex, saline CPZ3,
- GSM8541706 Cortex, saline CPZ3, rep15 Cortex, saline CPZ3,
- GSM8541707 Cortex, XPro1595 CPZ3, rep1 Cortex, XPro1595 CPZ3,
- GSM8541708 Cortex, XPro1595 CPZ3, rep2 Cortex, XPro1595 CPZ3,
- GSM8541709 Cortex, XPro1595 CPZ3, rep3 Cortex, XPro1595 CPZ3,
- GSM8541710 Cortex, XPro1595 CPZ3, rep4 Cortex, XPro1595 CPZ3,
- GSM8541711 Cortex, XPro1595 CPZ3, rep5 Cortex, XPro1595 CPZ3,
- GSM8541712 Cortex, XPro1595 CPZ3, rep6 Cortex, XPro1595 CPZ3,
- GSM8541713 Cortex, XPro1595 CPZ3, rep7 Cortex, XPro1595 CPZ3,
- GSM8541714 Cortex, XPro1595 CPZ3, rep8 Cortex, XPro1595 CPZ3,
- GSM8541715 Cortex, XPro1595 CPZ3, rep9 Cortex, XPro1595 CPZ3,
- GSM8541716 Cortex, XPro1595 CPZ3, rep10 Cortex, XPro1595 CPZ3,
+ 5 more — browse all 45 samples with per-sample file links →
- GSE278137 Microglia regulate cortical remyelination via ΤNFR1-dependent phenotypic polarization [RNA-Seq] 28 samples shares nfr1-dependent, remyelination, polarization, phenotypic, microglia, regulate, cortical
- GSE281947 Age-impaired remyelination is associated with dysregulated microglial transitions. 12 samples shares remyelination, microglia, regulate
- GSE266687 Single cell approaches define forebrain neural stem cell niches and identify microglial ligands that enhance precursor-mediated remyelination (scRNA-Seq) 10 samples shares remyelination, microglia, scrna-seq
- GSE11256 KCl depolarization-regulated genes in mouse cortical neurons 18 samples shares polarization, regulate, cortical
- GSE265840 BHLHE40 regulates myeloid cell polarization through IL-10-dependent and independent mechanisms 27 samples shares polarization, regulate
- GSE263765 Dicer deficient adult microglia negatively impacts the process of demyelination and remyelination 24 samples shares remyelination, microglia
- GSE312761 Phenotypic changes in cortical astrocytes translatome across the estrous cycle 19 samples shares phenotypic, cortical
- GSE268386 Senescent microglia limit remyelination through the senescence associated secretory phenotype 18 samples shares remyelination, microglia
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.