Mapping naturally presented T-cell antigens in medulloblastoma based on integrative multi-omics
DNA methylation · human · 56 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Homo sapiens (human)
- Topic
- MedulloblastomaThis series is part of our curated briefing on it.
- Samples
- 56 samples: 28 × ZH vs 10 × SA vs 6 × HH-MedulloGroups 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
- Mapping naturally presented T cell antigens in medulloblastoma based on integrative multi-omicsNature communications · 2025
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 GSE250587_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: Look for beta-value tables or raw IDAT files among the supplementary files.
Also filed as BioProject PRJNA1054577 and SRA study SRP451307. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 44 samples.
How we read this: 3 replicated groups read from 56 sample titles; they account for 44 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.
- GSM7660091 SA1 SA
- GSM7660092 SA2 SA
- GSM7660093 SA3 SA
- GSM7660094 SA4 SA
- GSM7660095 SA5 SA
- GSM7660096 ZH513 ZH
- GSM7660097 ZH680 ZH
- GSM7660098 ZH703 ZH
- GSM7660099 ZH713 ZH
- GSM7660100 ZH718 ZH
- GSM7660101 ZH732 ZH
- GSM7660102 ZH741 ZH
- GSM7660103 ZH868 ZH
- GSM7660104 ZH872 ZH
- GSM7660105 ZH859 ZH
- GSM7660106 ZH890 ZH
- GSM7660107 ZH913 ZH
- GSM7660108 ZH919 ZH
- GSM7660109 ZH937 ZH
- GSM7660110 HH01 491/12
- GSM7660111 HH02 1662/15
- GSM7660112 HH03 1074/17
- GSM7660113 HH04 2428/17
- GSM7660114 HH05 2910/17
- GSM7660115 HH06 1559/18
- GSM7660116 Wue N998/13
- GSM7660117 Wue N526/17
- GSM7660118 Wue N391/17
- GSM7982274 SA1 SA
- GSM7982275 SA2 SA
- GSM7982276 SA3 SA
- GSM7982277 SA4 SA
- GSM7982278 SA5 SA
- GSM7982279 ZH513 ZH
- GSM7982280 ZH680 ZH
- GSM7982281 ZH703 ZH
- GSM7982282 ZH713 ZH
- GSM7982283 ZH718 ZH
- GSM7982284 ZH732 ZH
- GSM7982285 ZH741 ZH
+ 16 more — browse all 56 samples with per-sample file links →
- GSE283621 Single-cell multi-omics analysis identifies metabolism-linked epigenetic reprogramming as a driver of therapy-resistant medulloblastoma 79 samples same disease briefing · shares medulloblastoma, multi-omics
- GSE37385 Subgroup specific somatic copy number aberrations in the medulloblastoma genome 1382 samples same disease briefing · shares medulloblastoma
- GSE270126 Divergent medulloblastoma chromatin states disclose KDM2B as a selective dependency. 219 samples same disease briefing · shares medulloblastoma
- GSE270125 Divergent medulloblastoma chromatin states disclose KDM2B as a selective dependency [CUT&Run] 169 samples same disease briefing · shares medulloblastoma
- GSE21140 Genomics of medulloblastoma identifies four distinct molecular variants 103 samples same disease briefing · shares medulloblastoma
- GSE243796 Multiomic profiling of medulloblastoma reveals subtype-specific targetable alterations at the proteome and N-glycan level 90 samples same disease briefing · shares medulloblastoma
- GSE294901 Measles oncolytic virus as an immunotherapy for recurrent/refractory pediatric medulloblastoma and atypical teratoid rhabdoid tumor: results from PNOC005 84 samples same disease briefing · shares medulloblastoma
- GSE49576 Methylation data from medulloblastoma tumor samples 83 samples same disease briefing · shares medulloblastoma
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.