MAIT cells in experimental autoimmune encephalomyelitis (EAE)
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: 4 × EAE_CNS vs 4 × EAE_spleen vs 4 × Healthy_spleenGroups 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
- Protective effect of TCR-mediated MAIT cell activation during experimental autoimmune encephalomyelitisNature communications · 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 GSE234291_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 PRJNA980696 and SRA study SRP441393. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 3 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.
- GSM7461644 EAE_CNS_rep1 EAE_CNS
- GSM7461645 EAE_CNS_rep2 EAE_CNS
- GSM7461646 EAE_CNS_rep3 EAE_CNS
- GSM7461647 EAE_CNS_rep4 EAE_CNS
- GSM7461648 EAE_spleen_rep1 EAE_spleen
- GSM7461649 EAE_spleen_rep2 EAE_spleen
- GSM7461650 EAE_spleen_rep3 EAE_spleen
- GSM7461651 EAE_spleen_rep4 EAE_spleen
- GSM7461652 Healthy_spleen_rep1 Healthy_spleen
- GSM7461653 Healthy_spleen_rep2 Healthy_spleen
- GSM7461654 Healthy_spleen_rep3 Healthy_spleen
- GSM7461655 Healthy_spleen_rep4 Healthy_spleen
- GSE287323 Transcriptomic profiling of oligodendrocytes, astrocytes, and microglia in an experimental autoimmune encephalomyelitis (EAE) model of demyelination 19 samples shares eae, encephalomyelitis, experimental, autoimmune
- GSE243235 Analysis of a non-obese diabetes-experimental autoimmune encephalomyelitis (NOD-EAE) 15 samples shares eae, encephalomyelitis, experimental, autoimmune
- GSE287324 Transcriptomic analysis of spinal cord in day 35 experimental autoimmune encephalomyelitis (EAE) model 10 samples shares eae, encephalomyelitis, experimental, autoimmune
- GSE262540 Myelin oligodendrocyte glycoprotein reactive Th17 cells drive Janus Kinase 1 dependent transcriptional reprogramming in astrocytes and alter cell surface cytokine receptor profiles during experimental autoimmune encephalomyelitis. 12 samples shares encephalomyelitis, experimental, autoimmune
- GSE227937 MicroRNA-150 controls experimental autoimmune encephalomyelitis by regulating CD4 T cell differentiation and function 69 samples shares encephalomyelitis, experimental, autoimmune
- GSE227844 MicroRNA-150 controls experimental autoimmune encephalomyelitis by regulating CD4 T cell differentiation and function [RNA-seq II] 44 samples shares encephalomyelitis, experimental, autoimmune
- GSE167868 MicroRNA-150 controls experimental autoimmune encephalomyelitis by regulating CD4 T cell differentiation and function [RNA-seq I] 25 samples shares encephalomyelitis, experimental, autoimmune
- GSE253318 Transcriptional profiling and multiple machine learning methods identified novel microglia biomarkers for Experimental Autoimmune Encephalomyelitis 16 samples shares encephalomyelitis, experimental, autoimmune
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.