Multiomic profiling of medulloblastoma reveals subtype-specific targetable alterations at the proteome and N-glycan level [RNA-Seq]
RNA-seq (gene expression) · human · 21 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
- 21 samples: 7 × SHH MB vs 6 × WNT MB vs 4 × GR4 MB vs 3 × GR3 MBGroups 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.
Read the full summary ↓
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE243795_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1020067 and SRA study SRP462679. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 4 replicated groups read from 21 sample titles; they account for 20 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.
- GSM7795728 WNT MB1 WNT MB
- GSM7795729 WNT MB2 WNT MB
- GSM7795730 WNT MB3 WNT MB
- GSM7795731 WNT MB4 WNT MB
- GSM7795732 WNT MB5 WNT MB
- GSM7795733 WNT MB6 WNT MB
- GSM7795734 GR4 MB7 GR4 MB
- GSM7795735 GR3 MB8
- GSM7795736 GR3 MB9 GR3 MB
- GSM7795737 GR3 MB10 GR3 MB
- GSM7795738 SHH MB11 SHH MB
- GSM7795739 SHH MB12 SHH MB
- GSM7795740 SHH MB13 SHH MB
- GSM7795741 SHH MB14 SHH MB
- GSM7795742 SHH MB15 SHH MB
- GSM7795743 SHH MB16 SHH MB
- GSM7795744 SHH MB17 SHH MB
- GSM7795745 GR4 MB18 GR4 MB
- GSM7795746 GR4 MB19 GR4 MB
- GSM7795747 GR4 MB20 GR4 MB
- GSM7795748 GR3 MB21 GR3 MB
- GSE243796 Multiomic profiling of medulloblastoma reveals subtype-specific targetable alterations at the proteome and N-glycan level 90 samples same disease briefing · shares subtype-specific, medulloblastoma, alterations, targetable, multiomic, proteome, n-glycan
- GSE269909 Divergent medulloblastoma chromatin states disclose KDM2B as a selective dependency [RNA-Seq] 50 samples same disease briefing · shares medulloblastoma, rna-seq
- GSE323995 CReP-mediated control of eIF2a phosphorylation is a central node in high-risk medulloblastoma [RNA-Seq 3] 48 samples same disease briefing · shares medulloblastoma, rna-seq
- GSE253557 Single-nuclei RNA-Seq profiles from Group 3 and Group 4 medulloblastomas [scRNA-Seq] 39 samples same disease briefing · shares medulloblastoma, rna-seq
- GSE267469 Dual targeting of processive transcription for Myc-driven circuitry in medulloblastoma [RNA-seq] 24 samples same disease briefing · shares medulloblastoma, rna-seq
- GSE230865 PolyA RNA-seq from Medulloblastoma cells ± EYA2 knockdown 18 samples same disease briefing · shares medulloblastoma, rna-seq
- GSE263652 Human cerebellar organoids to study medulloblastoma pathogenesis and treatment. [scRNA-Seq] 17 samples same disease briefing · shares medulloblastoma, rna-seq
- GSE288458 Fluid shear stress activates a targetable mechano-metastatic cascade to promote medulloblastoma metastasis 12 samples same disease briefing · shares medulloblastoma, targetable
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.