Patch-seq analysis of dorsal striatum cholinergic interneurons in a mouse model of 22q11 deletion syndrome
Single-cell RNA-seq · mouse · 125 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
- Mus musculus (mouse)
- Samples
- 125 samples: 125 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.
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 GSE328896_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 PRJNA1456977 and SRA study SRP694230. 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 125 sample titles: 125 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.
- GSM9693737 CHI067 Active WT
- GSM9693738 CHI068 Active WT
- GSM9693739 CHI069 Silent WT
- GSM9693740 CHI070 Silent WT
- GSM9693741 CHI071 Silent WT
- GSM9693742 CHI072 Active WT
- GSM9693743 CHI073 Active WT
- GSM9693744 CHI074 Active WT
- GSM9693745 CHI075 Active WT
- GSM9693746 CHI076 Silent WT
- GSM9693747 CHI077 Active WT
- GSM9693748 CHI078 Silent WT
- GSM9693749 CHI081 Silent WT
- GSM9693750 CHI082 Silent WT
- GSM9693751 CHI083 Active Het
- GSM9693752 CHI084 Active Het
- GSM9693753 CHI085 Silent Het
- GSM9693754 CHI086 Silent Het
- GSM9693755 CHI087 Active Het
- GSM9693756 CHI088 Active Het
- GSM9693757 CHI089 Silent Het
- GSM9693758 CHI090 Silent Het
- GSM9693759 CHI091 Silent Het
- GSM9693760 CHI092 Active Het
- GSM9693761 CHI093 Active Het
- GSM9693762 CHI094 Silent Het
- GSM9693763 CHI097 Silent Het
- GSM9693764 CHI100 Silent WT
- GSM9693765 CHI101 Silent WT
- GSM9693766 CHI102 Active WT
- GSM9693767 CHI103 Silent WT
- GSM9693768 CHI104 Active WT
- GSM9693769 CHI105 Active WT
- GSM9693770 CHI106 Active WT
- GSM9693771 CHI107 Silent WT
- GSM9693772 CHI108 Active WT
- GSM9693773 CHI109 Silent WT
- GSM9693774 CHI114 Silent WT
- GSM9693775 CHI116 Silent Het
- GSM9693776 CHI117 Active Het
+ 85 more — browse all 125 samples with per-sample file links →
- GSE293229 snRNA-seq analysis of dorsal striatum in a mouse model of 22q11 deletion syndrome 8 samples shares 22q11, striatum, deletion, dorsal
- GSE308753 Translatome of Dorsal Striatum Parvalbumin interneurons revisited: insights across diverse experimental paradigms [RiboTag] 24 samples shares interneurons, striatum, dorsal
- GSE308752 Translatome of Dorsal Striatum Parvalbumin interneurons revisited: insights across diverse experimental paradigms [RNA-Seq] 8 samples shares interneurons, striatum, dorsal
- GSE254044 Tbx1 haploinsufficiency induces bone-to-cerebellar deformity in 22q11.2 deletion syndrome 8 samples shares 22q11, deletion
- GSE315447 Suppressive Genetic Interactions Between Haploinsufficient Mitochondrial Genes Encoded in the 22q11.2 Microdeletion Locus Define Brain and Cardiac Phenotypes 59 samples shares 22q11, deletion
- GSE298336 Dissecting the cell autonomous and non-autonomous effects of DNMT1 deletion in cortical somatostatinergic interneurons 4 samples shares interneurons, deletion
- GSE299068 Reduced dosage of Kmt2d modifies the transcriptional landscape of Tbx1 haploinsufficiency towards phenotypes of 22q11.2DS 4 samples shares 22q11
- GSE272825 Single cell RNA sequencing of embryonic thymuses from 22q11.2 DS mouse models following in utero drug treatments. 4 samples shares 22q11
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.