Resolving spatial subclonal genomic heterogeneity of loss of heterozygosity and extrachromosomal DNA in gliomas
RNA-seq (gene expression) · human · 17 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
- 17 samples: 6 × Glioblastoma B vs 5 × Glioblastoma A vs 3 × Oligodendroglioma A vs 2 × Astrocytoma AGroups 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
- Resolving spatial subclonal genomic heterogeneity of loss of heterozygosity and extrachromosomal DNA in gliomasNature communications · 2025
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 GSE242352_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 PRJNA1013368. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 17 sample titles; they account for 16 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.
- GSM7759698 Glioblastoma A1 Glioblastoma A
- GSM7759699 Oligodendroglioma A1 Oligodendroglioma A
- GSM7759700 Glioblastoma A2 Glioblastoma A
- GSM7759701 Glioblastoma A3 Glioblastoma A
- GSM7759702 Astrocytoma A1 Astrocytoma A
- GSM7759703 Astrocytoma A2 Astrocytoma A
- GSM7759704 Diffuse Midline Glioma A1
- GSM7759705 Oligodendroglioma A2 Oligodendroglioma A
- GSM7759706 Glioblastoma A4 Glioblastoma A
- GSM7759707 Glioblastoma A5 Glioblastoma A
- GSM7759708 Oligodendroglioma A3 Oligodendroglioma A
- GSM8513873 Glioblastoma B6 Glioblastoma B
- GSM8513874 Glioblastoma B7 Glioblastoma B
- GSM8513875 Glioblastoma B8 Glioblastoma B
- GSM8513877 Glioblastoma B9 Glioblastoma B
- GSM8513879 Glioblastoma B10 Glioblastoma B
- GSM8513880 Glioblastoma B11 Glioblastoma B
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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.