Cell-mediated cytotoxicity surrounding the brain in spinal muscular atrophy
Single-cell RNA-seq · human · 47 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
- Homo sapiens (human)
- Samples
- 47 samples: 47 samples, each with a distinct title — no replicated groupsGroups 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
- Cell-mediated cytotoxicity within CSF and brain parenchyma in spinal muscular atrophy unaltered by nusinersen treatmentNature communications · 2024
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 GSE232391_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 PRJNA971910 and SRA study SRP437376. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 47 sample titles: 47 distinct titles with little repetition. 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.
- GSM7329816 single_cell RNA seq data of CSF from patient SMA1_1_untreated
- GSM7329817 single_cell RNA seq data of CSF from patient SMA1_1_nusinersen_6 months
- GSM7329818 single_cell RNA seq data of CSF from patient SMA1_1_nusinersen_10 months
- GSM7329819 single_cell RNA seq data of CSF from patient SMA1_2_untreated
- GSM7329820 single_cell RNA seq data of CSF from patient SMA1_2_nusinersen_6 months
- GSM7329822 single_cell RNA seq data of CSF from patient SMA1_2_nusinersen_10 months
- GSM7329823 single_cell RNA seq data of CSF from patient SMA1_3_untreated
- GSM7329825 single_cell RNA seq data of CSF from patient SMA1_3_nusinersen_6 months
- GSM7329828 single_cell RNA seq data of CSF from patient SMA1_4_untreated
- GSM7329829 single_cell RNA seq data of CSF from patient SMA1_4_nusinersen_6 months
- GSM7329830 single_cell RNA seq data of CSF from patient SMA1_4_nusinersen_10 months
- GSM7329831 single_cell RNA seq data of CSF from patient SMA1_5_untreated
- GSM7329832 single_cell RNA seq data of CSF from patient SMA1_5_nusinersen_2 months
- GSM7329833 single_cell RNA seq data of CSF from patient SMA1_5_nusinersen_10 months
- GSM7329834 single_cell RNA seq data of CSF from patient SMA1_6_untreated
- GSM7329835 single_cell RNA seq data of CSF from patient SMA1_6_nusinersen_6 months
- GSM7329836 single_cell RNA seq data of CSF from patient SMA1_6_nusinersen_10 months
- GSM7329837 single_cell RNA seq data of CSF from patient SMA1_7_untreated
- GSM7329838 single_cell RNA seq data of CSF from patient SMA1_7_nusinersen_2 months
- GSM7329839 single_cell RNA seq data of CSF from patient SMA1_7_nusinersen_6 months
- GSM7329840 single_cell RNA seq data of CSF from patient SMA1_7_nusinersen_10 months
- GSM7329841 single_cell RNA seq data of CSF from patient SMA1_8_nusinersen_10 months
- GSM7329842 single_cell RNA seq data of CSF from patient SMA1_9_nusinersen_10 months
- GSM7329843 single_cell TCR seq data of CSF from patient SMA1_1_untreated
- GSM7329844 single_cell TCR seq data of CSF from patient SMA1_1_nusinersen_6 months
- GSM7329845 single_cell TCR seq data of CSF from patient SMA1_1_nusinersen_10 months
- GSM7329846 single_cell TCR seq data of CSF from patient SMA1_2_nusinersen_6 months
- GSM7329847 single_cell TCR seq data of CSF from patient SMA1_2_nusinersen_10 months
- GSM7329848 single_cell TCR seq data of CSF from patient SMA1_3_nusinersen_6 months
- GSM7329849 single_cell TCR seq data of CSF from patient SMA1_4_untreated
- GSM7329850 single_cell TCR seq data of CSF from patient SMA1_4_nusinersen_6 months
- GSM7329851 single_cell TCR seq data of CSF from patient SMA1_4_nusinersen_10 months
- GSM7329852 single_cell TCR seq data of CSF from patient SMA1_5_untreated
- GSM7329853 single_cell TCR seq data of CSF from patient SMA1_5_nusinersen_10 months
- GSM7329854 single_cell TCR seq data of CSF from patient SMA1_6_untreated
- GSM7329855 single_cell TCR seq data of CSF from patient SMA1_6_nusinersen_6 months
- GSM7329856 single_cell TCR seq data of CSF from patient SMA1_6_nusinersen_10 months
- GSM7329857 single_cell TCR seq data of CSF from patient SMA1_7_untreated
- GSM7329858 single_cell TCR seq data of CSF from patient SMA1_7_nusinersen_2 months
- GSM7329859 single_cell TCR seq data of CSF from patient SMA1_7_nusinersen_6 months
+ 7 more — browse all 47 samples with per-sample file links →
- GSE290979 Targeted Antisense Oligonucleotide Treatment Rescues Developmental Alterations in Spinal Muscular Atrophy Organoids [bulk RNA-seq] 31 samples shares muscular, atrophy, spinal
- GSE297069 PROTACs therapeutically target the polyglutamine androgen receptor inspinal and bulbar muscular atrophy models 24 samples shares muscular, atrophy, spinal
- GSE302774 KIF5A downregulation in spinal muscular atrophy links axonal regeneration defects with ALS 12 samples shares muscular, atrophy, spinal
- GSE62540 SMN2 splicing modifiers improve motor function and longevity in mice with spinal muscular atrophy 12 samples shares muscular, atrophy, spinal
- GSE290216 Biomarkers of Immune Dysregulation and Post-Treatment Inflammation in Spinal Muscular Atrophy 11 samples shares muscular, atrophy, spinal
- GSE290980 Targeted Antisense Oligonucleotide Treatment Rescues Developmental Alterations in Spinal Muscular Atrophy Organoids [scRNA-seq] 8 samples shares muscular, atrophy, spinal
- GSE13828 Induced pluripotent stem cells from a spinal muscular atrophy patient 10 samples shares muscular, atrophy, spinal
- GSE295130 Multi-omics Integration Identifies NK Cell-Mediated Cytotoxicity as a Therapeutic Target in Systemic Lupus Erythematosus 26 samples shares cell-mediated, cytotoxicity
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.