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Comprehensive transcriptomic profiling of cortical and striatal regions in a postnatal mouse model of attention-deficit/hyperactivity disorder

GSE277931 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2026/07/24 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 12 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
12 samples: 3 × ADHD_CTX vs 3 × ADHD_ST vs 3 × Control_CTX vs 3 × Control_STGroups 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
Region-specific cortico-striatal transcriptomic remodeling following early postnatal dopaminergic disturbancebioRxiv : the preprint server for biology · 2026
Summary (written by the submitters)
Attention-deficit/hyperactivity disorder (ADHD) is a complex neurodevelopmental disorder characterized by attentional deficits, hyperactivity, and impulsivity. Despite advances in understanding its genetic and neurobiological underpinnings, comprehensive molecular characterization, particularly at early developmental stages, remains underexplored.
Read the full summary ↓
This study investigates transcriptomic alterations in the prefrontal cortex (PFC) and striatum (STR) of a postnatal ADHD mouse model induced by 6-hydroxydopamine (6-OHDA), which selectively eliminates dopaminergic neurons. Employing bulk RNA sequencing (RNA-seq) coupled with weighted gene co-expression network analysis (WGCNA), we identified 369 DEGs in the PFC, 493 DEGs in the STR, and 32 modules in WGCNA, uncovering distinct expression profiles associated with ADHD. Functional enrichment analyses identified that PFC-DEGs were involved in PFC development, plasma membrane signaling, and transcriptional regulation. STR-DEGs were associated with STR development, locomotion, extracellular matrix, and response to amphetamine. Notably, we identified significant overlaps between PFC- and STR-DEGs and genes linked to ADHD, autism spectrum disorders (ASD), schizophrenia (SCZ), and bipolar disorder (BD). Co-expression network analyses identified module-specific enrichments related to neurodevelopmental and cognitive functions, highlighting the roles of development, synaptic signaling, metabolism, immunity, and transcription in the pathophysiology of ADHD. These findings demonstrate the intricate gene expressions and co-expression networks underlying ADHD, providing deeper insights into the molecular mechanisms.
Published in
Region-specific cortico-striatal transcriptomic remodeling following early postnatal dopaminergic disturbance
Doi M, Berto S, Shimada S et al. · bioRxiv : the preprint server for biology 2026 · PMID 42239080 · doi:10.64898/2026.05.20.726444
This dataset
Open GSE277931 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 GSE277931_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 PRJNA1164763 and SRA study SRP534487. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42239080) ↗
Study design
3 × ADHD_CTX vs 3 × ADHD_ST vs 3 × Control_CTX vs 3 × Control_ST

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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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