snRNA-seq from left cerebral cortex (ENCSR442EUE)
Single-nucleus RNA-seq · mouse · 12 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
- 12 samples: 12 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
- An integrated encyclopedia of DNA elements in the human genomeNature · 2012
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 GSE323071_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 PRJNA66167 and SRA study SRP013027. 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 12 sample titles: 12 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.
- GSM9562341 snRNA-seq from left cerebral cortex (ENCLB746ZTK)
- GSM9562342 snRNA-seq from left cerebral cortex (ENCLB790ANJ)
- GSM9562343 snRNA-seq from left cerebral cortex (ENCLB301ZMV)
- GSM9562344 snRNA-seq from left cerebral cortex (ENCLB774SBK)
- GSM9562345 snRNA-seq from left cerebral cortex (ENCLB941ZPH)
- GSM9562346 snRNA-seq from left cerebral cortex (ENCLB090PVS)
- GSM9562347 snRNA-seq from left cerebral cortex (ENCLB508XMS)
- GSM9562348 snRNA-seq from left cerebral cortex (ENCLB010GON)
- GSM9562349 snRNA-seq from left cerebral cortex (ENCLB216XFZ)
- GSM9562350 snRNA-seq from left cerebral cortex (ENCLB487JUV)
- GSM9562351 snRNA-seq from left cerebral cortex (ENCLB982FMY)
- GSM9562352 snRNA-seq from left cerebral cortex (ENCLB724TNB)
- GSE248250 Multimodal perspectives on the upper layer neurogenesis in the murine cerebral cortex 137 samples shares cerebral, cortex
- 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 cerebral, cortex
- 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 cerebral, cortex
- GSE52564 An RNA-Seq transcriptome and splicing database of neurons, glia, and vascular cells of the cerebral cortex 17 samples shares cerebral, cortex
- GSE263649 Single nucleus RNA sequencing of the cerebral cortex from genetically diverse inbred mouse strains reveals differences in pericyte and endothelial cell composition 16 samples shares cerebral, cortex
- GSE270958 Transcriptome Analysis of the Mouse Cerebral Cortex in Brain ischemia Injury Model 10 samples shares cerebral, cortex
- GSE327841 Transcriptomic profiling of Gpc4 and Gpc2 loss-of-function in the embryonic cerebral cortex 9 samples shares cerebral, cortex
- GSE293709 Transcriptome analysis in the prefrontal cortex of different ASD mouse models treated with drug 1565 samples shares cortex
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.