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The transcription factor LHX2 mediates and enhances oncogenic BMP signaling in medulloblastoma

GSE229150 Homo sapiens (human) RNA-seq (gene expression) 30 samples Submitted 2025/03/28 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 30 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)
Topic
MedulloblastomaThis series is part of our curated briefing on it.
Samples
30 samples: 10 conditions, mostly in triplicateGroups 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
The transcription factor LHX2 mediates and enhances oncogenic BMP signaling in medulloblastomaCell death and differentiation · 2025
Summary (written by the submitters)
In this study, we investigate the potential role of BMP stimulation on the oncogenic capacity of Medulloblastoma cells. BMP7 stimulation demonstrated pleiotropic effects on the investigated cells, inducing high cancer stem cell capacity or cell death. In addition, we uncovered the role of LHX2 as a prominent target of BMP7 signaling that can alter the stem cell capacity and positively modulate BMP signaling through a forward feedback loop.
Published in
The transcription factor LHX2 mediates and enhances oncogenic BMP signaling in medulloblastoma
Ohata Y, Ali MM, Tsubakihara Y et al. · Cell death and differentiation 2025 · PMID 40148468 · doi:10.1038/s41418-025-01488-6
This dataset
Open GSE229150 in finder → Find more human RNA-seq datasets → Medulloblastoma landscape →
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 GSE229150_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 PRJNA953050 and SRA study SRP431387. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40148468) ↗
Study design
10 conditions, mostly in triplicate
CHLA01-BMP ×3 CHLA01-Cont ×3 CHLA01R-BMP ×3 CHLA01R-Cont ×3 CHLA01R-DMSO ×3 CHLA01R-LDN ×3 D425-BMP ×3 D425-Cont ×3 +2 more

Supports a between-group comparison across 30 samples.

How we read this: 10 replicated groups read from 30 sample titles; they account for 30 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
More Medulloblastoma datasets

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.