GEO series

Affymetrix SNP 6.0 array data for Diffuse Intrinsic Pontine Glioma

GSE50024 Homo sapiens (human) SNP genotyping by SNP array; Genome variation profiling by SNP array 72 samples Submitted 2014/03/31 Platform GPL6801

At a glance

human · 72 samples

Organism: Homo sapiens (human)
Samples: 72 samples
Data you can get: A processed table (series matrix) and supplementary files from NCBI.

Summary (written by the submitters)

Diffuse Intrinsic Pontine Glioma (DIPG) is a fatal brain cancer that arises in the brainstem of children with no effective treatment and near 100% fatality. The failure of most therapies can be attributed to the delicate location of these tumors and choosing therapies based on assumptions that DIPGs are molecularly similar to adult disease.

Read the full summary ↓

Recent studies have unraveled the unique genetic make-up of this brain cancer with nearly 80% harboring a K27M-H3.3 or K27M-H3.1 mutation. However, DIPGs are still thought of as one disease with limited understanding of the genetic drivers of these tumors. To understand what drives DIPGs we integrated whole-genome-sequencing with methylation, expression and copy-number profiling, discovering that DIPGs are three molecularly distinct subgroups (H3-K27M, Silent, MYCN) and uncovering a novel recurrent activating mutation in the activin receptor ACVR1, in 20% of DIPGs. Mutations in ACVR1 were constitutively activating, leading to SMAD phosphorylation and increased expression of downstream activin signaling targets ID1 and ID2. Our results highlight distinct molecular subgroups and novel therapeutic targets for this incurable pediatric cancer.

This dataset

Open GSE50024 in finder → Find more human datasets →

Download · which file do I need?

Direct links to NCBI, 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.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE50024_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

Also filed as BioProject PRJNA215836. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 24705254) ↗

Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 72 more — browse all 72 samples with per-sample file links →

Datasets on a similar topic

GSE225029 SUV39H1 inhibition by Chaetocin targets stemness and oncogenic networks and synergizes with ONC201 against Diffuse intrinsic pontine gliomas 12 samples shares intrinsic, diffuse, pontine, glioma
GSE215220 RNA-Seq of VUMC-DIPG10 and HSJD-DIPG007 human diffuse intrinsic pontine glioma cells treated with a copper chelator 12 samples shares intrinsic, diffuse, pontine, glioma
GSE250466 Oncohistone H3.3K27M-driven CREB5/ID1 Axis Mediates the Malignant Cell States of Diffuse Intrinsic Pontine Glioma (DIPG) [RNA-seq] 10 samples shares intrinsic, diffuse, pontine, glioma
GSE17958 Affymetrix SNP array data for 47 lung squamous cell carcinoma and 40 esophageal squamous cell carcinoma samples. 87 samples shares snp, affymetrix, array
GSE16011 Intrinsic Gene Expression Profiles of Gliomas are a Better Predictor of Survival than Histology 284 samples shares intrinsic, glioma
GSE246931 Specific cPRC1 complexes are co-opted to mediate oncogenic gene repression in diffuse midline glioma 164 samples shares diffuse, glioma
GSE268776 Multi-omics approaches reveal that Diffuse Midline Gliomas are susceptible to replication stress therapy and cholesterol biosynthesis inhibition [RNA-seq] 64 samples shares diffuse, glioma
GSE272261 GABAergic neuronal lineage development determines clinically actionable targets in diffuse hemispheric glioma, H3G34-mutant [RNA-Seq] 57 samples shares diffuse, glioma

Search all human datasets in GEO →

Share this dataset

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.