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Molecular and neural control of social hierarchy by forebrain-thalamocortical circuit

GSE300694 Mus musculus (mouse) RNA-seq (gene expression) 10 samples Submitted 2025/11/13 Platform GPL19057
At a glance

RNA-seq (gene expression) · mouse · 10 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Mus musculus (mouse)
Samples
10 samples: 4 × adultMaleThalamus, control, vs 3 × adultMaleThalamus, dominant, vs 3 × adultMaleThalamus, subordinate,Groups 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
Molecular and neural control of social hierarchy by a forebrain-thalamocortical circuitCell · 2025
Summary (written by the submitters)
Many animal groups are organized hierarchically, which generates behavioral states that facilitate social interactions. Although generally stable, social status can change, underscoring the plasticity of underlying neural circuits. We examined competition among unfamiliar male mice and uncovered how the molecular and biophysical characteristics of a forebrain-thalamocortical circuit affect hierarchy.
Read the full summary ↓
We identify the mediodorsal thalamus (MDT) as a hub receiving inputs from orbitofrontal cortex and basal forebrain and projecting to caudal anterior cingulate cortex (cACC) to regulate competitive performance. This circuit becomes potentiated or depressed in high- and low-rank males, respectively, in part through altered expression of the voltage-gated ion channel Trpm3 and synaptic plasticity. In high-rank mice, MDT projections drive inhibition of cACC pyramidal cells, promoting winning, in a pattern strikingly opposite to dorsomedial prefrontal cortex, where winners display increased pyramidal cell activity. Our data suggests a model in which hierarchy modulation relies on coordinated remodeling of multiple forebrain-thalamocortical circuits.
Published in
Molecular and neural control of social hierarchy by a forebrain-thalamocortical circuit
Nelson AC, Kapoor V, Vaughn E et al. · Cell 2025 · PMID 40795854 · doi:10.1016/j.cell.2025.07.024
This dataset
Open GSE300694 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 GSE300694_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1281677 and SRA study SRP594338. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40795854) ↗
Study design
4 × adultMaleThalamus, control, vs 3 × adultMaleThalamus, dominant, vs 3 × adultMaleThalamus, subordinate,

Supports a between-group comparison across 10 samples.

How we read this: 3 replicated groups read from 10 sample titles; they account for 10 of them. 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
Datasets on a similar topic

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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.