Transcriptional profiling of striatum from a mouse model of Huntington's disease (Q140) crossed with Msh3 heterozygous and homozygous mice [Msh3 snRNA-seq]
Single-nucleus RNA-seq · mouse · 24 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
- 24 samples: 24 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
- Distinct mismatch-repair complex genes set neuronal CAG-repeat expansion rate to drive selective pathogenesis in HD miceCell · 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 GSE241278_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 PRJNA1007639 and SRA study SRP456133. 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 24 sample titles: 24 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.
- GSM7720537 Het (Q140) KI Striatum male snRNA rep1 [Msh3 snRNA-seq]
- GSM7720538 Het (Q140) KI Striatum female snRNA rep1 [Msh3 snRNA-seq]
- GSM7720539 Het (Q140) KI Striatum male snRNA rep2 [Msh3 snRNA-seq]
- GSM7720540 Het (Q140) KI Striatum female snRNA rep2 [Msh3 snRNA-seq]
- GSM7720541 Het (Q140) KI X Msh3-/- Striatum male snRNA rep1 [Msh3 snRNA-seq]
- GSM7720542 Het (Q140) KI X Msh3-/- Striatum female snRNA rep1 [Msh3 snRNA-seq]
- GSM7720543 Het (Q140) KI X Msh3-/- Striatum male snRNA rep2 [Msh3 snRNA-seq]
- GSM7720544 Het (Q140) KI X Msh3-/- Striatum female snRNA rep2 [Msh3 snRNA-seq]
- GSM7720545 Het (Q140) KI X Msh3+/- Striatum male snRNA rep1 [Msh3 snRNA-seq]
- GSM7720546 Het (Q140) KI X Msh3+/- Striatum female snRNA rep1 [Msh3 snRNA-seq]
- GSM7720547 Het (Q140) KI X Msh3+/- Striatum female snRNA rep2 [Msh3 snRNA-seq]
- GSM7720548 Het (Q140) KI X Msh3+/- Striatum male snRNA rep2 [Msh3 snRNA-seq]
- GSM7720549 Msh3-/- Striatum female snRNA rep1 [Msh3 snRNA-seq]
- GSM7720550 Msh3-/- Striatum male snRNA rep1 [Msh3 snRNA-seq]
- GSM7720551 Msh3-/- Striatum male snRNA rep2 [Msh3 snRNA-seq]
- GSM7720552 Msh3-/- Striatum female snRNA rep2 [Msh3 snRNA-seq]
- GSM7720553 Msh3+/- Striatum female snRNA rep1 [Msh3 snRNA-seq]
- GSM7720554 Msh3+/- Striatum male snRNA rep1 [Msh3 snRNA-seq]
- GSM7720555 Msh3+/- Striatum female snRNA rep2 [Msh3 snRNA-seq]
- GSM7720556 Msh3+/- Striatum male snRNA rep2 [Msh3 snRNA-seq]
- GSM7720557 WT Striatum male snRNA rep1 [Msh3 snRNA-seq]
- GSM7720558 WT Striatum male snRNA rep2 [Msh3 snRNA-seq]
- GSM7720559 WT Striatum female snRNA rep1 [Msh3 snRNA-seq]
- GSM7720560 WT Striatum female snRNA rep2 [Msh3 snRNA-seq]
- GSE237571 Transcriptional profiling of striatum from a mouse model of Huntington's disease (Q140) crossed with Msh3 heterozygous and homozygous mice [Msh3_striatum_6m] 48 samples shares q140, msh3, heterozygous, huntington, homozygous, striatum, crossed
- GSE229827 Transcriptional profiling of striatum from a mouse model of Huntington's disease (Q140) crossed with Msh3 heterozygous and homozygous mice [Msh3_striatum] 48 samples shares q140, msh3, heterozygous, huntington, homozygous, striatum, crossed
- GSE229826 Transcriptional profiling of cerebral cortex from a mouse model of Huntington's disease (Q140) crossed with Msh3 heterozygous and homozygous mice [Msh3_cortex] 48 samples shares q140, msh3, heterozygous, huntington, homozygous, crossed
- GSE237564 Transcriptional profiling of cortex from a mouse model of Huntington's disease (Q140) crossed with Msh3 heterozygous and homozygous mice [Msh3_cortex_6m] 48 samples shares q140, msh3, heterozygous, huntington, homozygous, crossed
- GSE229815 Transcriptional profiling of 12 month striatum and cortex from a mouse model of Huntington's disease (Q140) crossed with Msh2 heterozygous or homozygous conditional knockout mice [Msh2_12mon] 138 samples shares q140, heterozygous, huntington, homozygous, striatum, crossed
- GSE288739 Transcriptional profiling of striatum and cortex from a mouse model of Huntington's disease (Q140) crossed with Pms1 heterozygous and homozygous mice 96 samples shares q140, heterozygous, huntington, homozygous, striatum, crossed
- GSE271022 Transcriptional profiling of cerebral cortex and striatum from a mouse model of Huntington's disease (Q140) crossed with Msh6 heterozygous and homozygous mice 96 samples shares q140, heterozygous, huntington, homozygous, striatum, crossed
- GSE237584 Transcriptional profiling of striatum from a mouse model of Huntington's disease (Q140) crossed with Pms2 heterozygous and homozygous mice [Pms2_striatum] 48 samples shares q140, heterozygous, huntington, homozygous, striatum, crossed
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.