Single-nucleus RNA-seq identifies one galanin neuronal subtype in mouse preoptic hypothalamus activated during recovery sleep after sleep deprivation
Single-nucleus RNA-seq · mouse · 19 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
- 19 samples: 19 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
- Single-nucleus RNA-seq identifies one galanin neuronal subtype in mouse preoptic hypothalamus activated during recovery from sleep deprivationCell reports · 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 GSE243489_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 PRJNA1018579 and SRA study SRP461529. 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 19 sample titles: 19 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.
- GSM7789435 M34, normal sleep, male, rep1
- GSM7789436 M33, normal sleep, male, rep2
- GSM7789437 M18, normal sleep, male, rep3
- GSM7789438 M17, normal sleep, male, rep4
- GSM7789439 M1, normal sleep, male, rep5
- GSM7789440 F39, normal sleep, female, rep1
- GSM7789441 F38, normal sleep, female, rep2
- GSM7789442 F37, normal sleep, female, rep3
- GSM7789443 F10, normal sleep, female, rep4
- GSM7789444 M8, recovery sleep, male, rep1
- GSM7789445 M7, recovery sleep, male, rep2
- GSM7789446 M6, recovery sleep, male, rep3
- GSM7789447 M5, recovery sleep, male, rep4
- GSM7789448 M35, recovery sleep, male, rep5
- GSM7789449 F43, recovery sleep, female, rep1
- GSM7789450 F42, recovery sleep, female, rep2
- GSM7789451 F40, recovery sleep, female, rep3
- GSM7789452 F32, recovery sleep, female, rep4
- GSM7789453 F29, recovery sleep, female, rep5
- GSE313497 Cell-specific effects of acute sleep deprivation on transcriptomic signatures of non-neuronal cells in the mouse hippocampus and prefrontal cortex 11 samples shares deprivation, neuronal
- GSE237419 Transcriptional dynamics of sleep deprivation and subsequent recovery sleep in the murine cortex 10 samples shares deprivation, recovery
- GSE84371 Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons 924 samples shares single-nucleus
- GSE309251 Western diet-induced MASH in PWK/PhJ mice identifies disruptions in amino acid and sphingolipid metabolism contributing to cardiac dysfunction 347 samples shares identifies
- GSE215960 Subclonal evolution revealed by single-cell profiles of expressed mutations identifies adaptation mechanisms to immunotherapy in melanoma [scRNA-seq] 192 samples shares identifies
- GSE299686 Longitudinal liquid biopsy identifies an early predictive biomarker of immune checkpoint blockade response in head and neck squamous cell carcinoma [bulk RNA-seq] 178 samples shares identifies
- GSE293874 Anchored screening identifies transcription factor blueprints underlying dendritic cell diversity and subset-specific anti-tumor immunity [mouse bulk RNA-seq] 167 samples shares identifies
- GSE299683 Longitudinal liquid biopsy identifies an early predictive biomarker of immune checkpoint blockade response in head and neck squamous cell carcinoma [scRNA-seq] 125 samples shares identifies
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.