single nucleus RNA sequencing of cells from across the whole mouse brain in a mouse model of ALS
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 5 × rNLS sample vs 5 × control sampleGroups 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
- Neuronal TDP-43 pathology drives astrocytic interferon response in a mouse model of ALSJournal of neuroinflammation · 2025
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 GSE281126_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 PRJNA1182348 and SRA study SRP543321. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 2 replicated groups read from 10 sample titles; they account for 10 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.
- GSM8611305 rNLS sample 1 rNLS sample
- GSM8611306 control sample 1 control sample
- GSM8611307 rNLS sample 2 rNLS sample
- GSM8611308 control sample 2 control sample
- GSM8611309 control sample 3 control sample
- GSM8611310 rNLS sample 3 rNLS sample
- GSM8611311 control sample 4 control sample
- GSM8611312 control sample 5 control sample
- GSM8611313 rNLS sample 4 rNLS sample
- GSM8611314 rNLS sample 5 rNLS sample
- GSE233983 Spatial transcriptomics of the aging mouse brain reveals origins of inflammation in the white matter 44 samples shares als, brain
- GSE277487 Single-nucleus RNA-seq of mouse cortex following CCI-induced traumatic brain injury across multiple time points 12 samples shares across, brain
- GSE269748 A single-cell atlas deconstructs heterogeneity across multiple models in murine traumatic brain injury and identifies novel cell-specific targets 36 samples shares across, brain
- GSE326055 Single-cell RNA sequencing reveals blood contact-dependent functional specialization of vascular-associated immune cells in a MCAO model 4 samples shares als
- GSE306031 Single-Nucleus Transcriptomics Reveals Cell Type-Specific Remodeling and Epilepsy Associated Microglia 31 samples shares als
- GSE255418 RNA-sequencing reveals novel molecular mechanisms of endometriosis lesion development in a mouse model 36 samples shares als
- GSE300933 Ptpn2 limits plasma cell fate and antiviral immunity by integrating B cell receptor and IFN-γ signals in B cells 23 samples shares als
- GSE220691 Kidney Single-Cell Atlas Reveals Macrophage Heterogeneity in Progression and Regression of Cisplatin Induced AKI. 22 samples shares als
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.