Deletion of the X chromosome gene Kdm6a in microglia is protective in the multiple sclerosis model
RNA-seq (gene expression) · mouse · 12 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 12 samples: 6 × Sc_F_cKO vs 6 × Sc_F_WTGroups 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
- Deletion of the X-chromosomal gene Kdm6a in microglia of female mice ameliorates neuroinflammation and restores translatome profilesScience translational medicine · 2025
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 GSE220566_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA910214 and SRA study SRP412090. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 2 replicated groups read from 12 sample titles; they account for 12 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.
- GSM6806947 Sc_F_cKO_1 Sc_F_cKO
- GSM6806948 Sc_F_cKO_2 Sc_F_cKO
- GSM6806949 Sc_F_cKO_3 Sc_F_cKO
- GSM6806950 Sc_F_cKO_4 Sc_F_cKO
- GSM6806951 Sc_F_cKO_5 Sc_F_cKO
- GSM6806952 Sc_F_cKO_6 Sc_F_cKO
- GSM6806953 Sc_F_WT_7 Sc_F_WT
- GSM6806954 Sc_F_WT_8 Sc_F_WT
- GSM6806955 Sc_F_WT_9 Sc_F_WT
- GSM6806956 Sc_F_WT_10 Sc_F_WT
- GSM6806957 Sc_F_WT_11 Sc_F_WT
- GSM6806958 Sc_F_WT_12 Sc_F_WT
- GSE296797 CD38+CD93+ microglia and macrophages drive neuroinflammation through glycolysis-histone lactylation axis in multiple sclerosis model mice 17 samples shares microglia, sclerosis, multiple
- GSE273690 Adhesion G protein-coupled receptor ADGRG1 promotes protective microglial response in Alzheimer’s disease 48 samples shares protective, microglia
- GSE237390 Loss of Kmt2c or Kmt2d drives brain metastasis via KDM6A-dependent upregulation of MMP3 [ChIP-seq] 54 samples shares kdm6a
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares microglia
- GSE294851 Utx (Kdm6a) promotes differentiation non-catalytically in somatic self-renewing epithelia [ChIP-seq] 17 samples shares kdm6a
- GSE279279 KDM6A facilitates Xist upregulation at the onset of X inactivation [CUT&Run] 14 samples shares kdm6a
- GSE302808 Depletion of Peripheral Monocytes Alters Long-Term Gene Expression in Microglia in a Murine Model of Traumatic Brain Injury 84 samples shares microglia
- GSE300113 Heterogenous microglial reactivity contrasts with stable vascular transcriptional programs in mouse models of Alzheimer’s, CADASIL, and Traumatic Brain Injury (Main dataset) 59 samples shares 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.