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Sensory input, sex, and function shape hypothalamic cell type development

GSE280964 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 190 samples Submitted 2024/12/12 Platform GPL24247
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 190 samples

What it is
ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
Organism
Mus musculus (mouse)
Samples
190 samples: 160 distinct titles, 28 of them repeatedGroups 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
Sensory input, sex and function shape hypothalamic cell type developmentNature · 2025
Summary (written by the submitters)
Mammalian behavior and physiology undergo dramatic changes in early life. Young animals rely on conspecifics to meet their needs and start displaying nutritional independence and sex-specific social interactions at weaning and puberty, respectively. How neuronal populations regulating homeostatic functions and social behaviors develop during these transitions remains unclear.
Read the full summary ↓
We used paired transcriptomic and chromatin accessibility profiling to examine the developmental trajectories of neuronal populations in the hypothalamic preoptic region, where cell types with key roles in physiological and behavioral control have been identified1–6. These data reveal a remarkable diversity of developmental trajectories shaped by the sex of the animal, and the location and behavioral or physiological function of the corresponding cell types. We identify key stages of preoptic development, including early diversification, perinatal emergence of sex differences, postnatal maturation and refinement of signaling networks, and nonlinear transcriptional changes accelerating at the time of weaning and puberty. We assessed preoptic development in various sensory mutants and find a major role for vomeronasal sensing in the timing of preoptic cell type maturation. These results provide novel insights into the development of neurons controlling homeostatic functions and social behaviors and lay ground for examining the dynamics of these functions in early life.
Published in
Sensory input, sex and function shape hypothalamic cell type development
Kaplan HS, Logeman BL, Zhang K et al. · Nature 2025 · PMID 40044853 · doi:10.1038/s41586-025-08603-0
This dataset
Open GSE280964 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE280964_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.

Also filed as BioProject PRJNA1180197 and SRA study SRP542275. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40044853) ↗
Study design
160 distinct titles, 28 of them repeated
Piezo2_P18_F_mut ×3 Piezo2_P18_F_ctrl ×3 E18_F ×2 E18_M ×2 P0_F_1_tech ×2 P0_M ×2 P4_F ×2 P4_M ×2 +20 more

How we read this: Read from 190 sample titles: 160 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.

Samples in this study

+ 150 more — browse all 190 samples with per-sample file links →

Datasets on a similar topic

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