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IRX2 and NPTX1 differential regulation of b-catenin underlies MEK-mediated proliferation in human neuroglial cells

GSE282456 Homo sapiens (human) RNA-seq (gene expression) 40 samples Submitted 2025/04/21 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 40 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
Homo sapiens (human)
Samples
40 samples: 39 distinct titles, 1 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
IRX2 and NPTX1 differential regulation of β-catenin underlies MEK-mediated proliferation in human neuroglial cellsGenes & development · 2025
Summary (written by the submitters)
The two major genomic alterations in pediatric pilocytic astrocytoma (PA) are NF1 loss and KIAA1549: BRAF rearrangement. While these molecular changes result in increased MEK activity and tumor growth, it is not clear exactly how MEK controls human neuroglial cell proliferation.
Read the full summary ↓
Leveraging human induced pluripotent stem cells harboring these PA-associated alterations, we use a combination of genetic and pharmacological approaches to demonstrate that MEK-regulated cell growth is mediated by b-catenin through independent mechanisms involving IRX2 control of CTNNB transcription and NPTX1 stabilization of b-catenin protein levels. These results provide new mechanistic insights into MEK regulation of human brain cell function
Published in
IRX2 and NPTX1 differential regulation of β-catenin underlies MEK-mediated proliferation in human neuroglial cells
Chen A, Wang H, Li X et al. · Genes & development 2025 · PMID 40240141 · doi:10.1101/gad.352508.124
This dataset
Open GSE282456 in finder → Find more human 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 GSE282456_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 PRJNA1188611 and SRA study SRP546566. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40240141) ↗
Study design
39 distinct titles, 1 of them repeated
astro_st18_a ×2

How we read this: Read from 40 sample titles: 39 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
Datasets on a similar topic

Search all human RNA-seq datasets in GEO →

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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.