GEO series

Integrated ERK-PKA-YAP/TAZ-SHH Signaling Orchestrates Cortical Radial Glia Identity and Lineage Diversification

GSE293205 Mus musculus (mouse) Single-cell RNA-seq 11 samples Submitted 2025/07/01 Platform GPL24247

At a glance

Single-cell RNA-seq · mouse · 11 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
Organism: Mus musculus (mouse)
Samples: 11 samples: 11 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: Integrated ERK-PKA-YAP/TAZ-SHH Signaling Orchestrates Cortical Radial Glia Identity and Lineage DiversificationAdvanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026

Summary (written by the submitters)

The signaling pathways governing cortical neurogenesis and gliogenesis in mice are well-defined, yet how they integrate to control the lineage progression of cortical radial glia (RGs) remains incompletely understood. Here, using mouse genetic models, it is demonstrated that ERK and PKA signaling cooperate to preserve the neurogenic capacity of cortical RGs by suppressing the gliogenic pathways YAP/TAZ and SHH.

Read the full summary ↓

Specifically, YAP/TAZ signaling drives cortical RGs toward an ependymal fate, while SHH signaling promotes the generation of tripotential intermediate progenitor cells that produce cortical astrocytes and oligodendrocytes, and olfactory bulb interneurons. Reanalysis of published human cortical scRNA-seq data further revealed that the functional roles of these signaling pathways are conserved between mouse and human cortical RGs. Furthermore, human cortical outer RGs acquire dominant ERK/PKA signaling through a self-reinforcing loop that suppresses both YAP and SHH signaling, markedly enhancing self-renewal and extending neurogenesis. Thus, a tripartite network of ERK/PKA, YAP/TAZ, and SHH whose cross-repressive logic coordinates neurogenesis with gliogenesis and may underlie evolutionary expansion, providing a framework for understanding cortical development and evolution, is identified.

Published in

Integrated ERK-PKA-YAP/TAZ-SHH Signaling Orchestrates Cortical Radial Glia Identity and Lineage Diversification

Zhang Z, Xu Z, Fu T et al. · Advanced science (Weinheim, Baden-Wurttemberg, Germany) 2026 · PMID 41221591 · doi:10.1002/advs.202513571

This dataset

Open GSE293205 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 GSE293205_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: 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 PRJNA1243344 and SRA study SRP573897. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41221591) ↗

Study design

11 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 11 sample titles: 11 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

GSM8878599 cortex, P2_Super_without_Cre, control
GSM8878600 cortex, P2_hGFAP_Cre_Super, experiment
GSM8878601 cortex, E16_5_Wild_type_littermate, control
GSM8878602 cortex, E16_5_hGFAP_Cre_Super, experiment
GSM8878603 cortex, E16_5_SuperHippo(without_Cre), control
GSM8878604 cortex, E16_5_Emx1_Cre_Super, experiment
GSM8878605 cortex, E18_hGFAP_Cre_SmoF/F_dnPKA, experiment
GSM8878606 cortex, P2_SmoF/F, control
GSM8878607 cortex, P2_hGFAP_Cre_SmoF/F, experiment
GSM8878608 cortex, E15_Map2k1/2, control
GSM8878609 cortex, E15_Emx1_Cre_Map2k1/2_dcko, experiment

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