Single-nucleus multiomic profiling of mouse substantia nigra across age
Single-nucleus RNA-seq · mouse · 16 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue).
- Organism
- Mus musculus (mouse)
- Samples
- 16 samples: 8 conditions, mostly in duplicateGroups 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
- Single-nucleus multiomic profiling of the aging mouse substantia nigra reveals conserved gene alterations linked to Parkinson's diseaseGenome research · 2026
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 GSE267831_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 PRJNA1113330 and SRA study SRP508568. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8279371 ATAC_12m_rep1 ATAC_12m
- GSM8279372 RNA_12m_rep1 RNA_12m
- GSM8279373 ATAC_2m_rep1 ATAC_2m
- GSM8279374 RNA_2m_rep1 RNA_2m
- GSM8279375 ATAC_2m_rep2 ATAC_2m
- GSM8279376 RNA_2m_rep2 RNA_2m
- GSM8279377 ATAC_6m_rep1 ATAC_6m
- GSM8279378 RNA_6m_rep1 RNA_6m
- GSM8279379 ATAC_6m_rep2 ATAC_6m
- GSM8279380 RNA_6m_rep2 RNA_6m
- GSM8279381 ATAC_12m_rep2 ATAC_12m
- GSM8279382 RNA_12m_rep2 RNA_12m
- GSM8279383 ATAC_18m_rep1 ATAC_18m
- GSM8279384 RNA_18m_rep1 RNA_18m
- GSM8279385 ATAC_18m_rep2 ATAC_18m
- GSM8279386 RNA_18m_rep2 RNA_18m
- GSE342034 Matched short-read and long-read single-nucleus RNA-sequencing of substantia nigra / VTA and olfactory bulb from SNCA-GR humanized-knock-in mice 12 samples shares single-nucleus, substantia, nigra
- GSE333807 Single-nucleus multiomic profiling of hippocampus and frontal cortex in a C9orf72 knockout mouse model 52 samples shares single-nucleus, multiomic
- GSE288206 Single-nucleus multiomics of murine gonads reveals gene-regulatory networks underlying sex determination 24 samples shares single-nucleus, multiomic
- GSE277487 Single-nucleus RNA-seq of mouse cortex following CCI-induced traumatic brain injury across multiple time points 12 samples shares single-nucleus, across
- GSE294332 Multiomic single nuclei profiling of a mouse model of Alzheimer’s disease reveals that ACSS2 confers neuronal resilience to tauopathy 49 samples shares multiomic
- GSE268494 Single Cell Multiomics Profiling for the Mouse Polycystic Kidney Disease 32 samples shares multiomic
- GSE246688 CUT&Tag, ATAC-seq, bulk RNA-seq and single-nucleus RNA-seq analysis of histone variant H2BE in cortical neurons 67 samples shares single-nucleus
- GSE237750 Transcriptomic profiling across 20 CC-RIX genetic backgrounds with and without high-fat high-sugar (HFHS) diet, and with and without metformin 2113 samples shares across
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.