Extreme structural heterogeneity rewires glioblastoma chromosomes to sustain patient-specific transcriptional programs [RNA-Seq]
RNA-seq (gene expression) · human · 28 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
- 28 samples: 28 samples, each with a distinct title — no replicated groupsGroups 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
- Pervasive structural heterogeneity rewires glioblastoma chromosomes to sustain patient-specific transcriptional programsNature communications · 2024
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 GSE229965_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 PRJNA956904. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 28 sample titles: 28 distinct titles with little repetition. 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.
- GSM7182031 G1-RNA-seq
- GSM7182032 G120-RNA-seq
- GSM7182033 G148-RNA-seq
- GSM7182034 G163-RNA-seq
- GSM7182035 G171-RNA-seq
- GSM7182036 G181-RNA-seq
- GSM7182037 G208-RNA-seq
- GSM7182038 G213-RNA-seq
- GSM7182039 G23-RNA-seq
- GSM7182040 G275-RNA-seq
- GSM7182041 G275R-RNA-seq
- GSM7182042 G28-RNA-seq
- GSM7182043 G318-RNA-seq
- GSM7182044 G323-RNA-seq
- GSM7182045 G351-RNA-seq
- GSM7182046 G390-RNA-seq
- GSM7182047 G394-RNA-seq
- GSM7182048 G402-RNA-seq
- GSM7182049 G402R-RNA-seq
- GSM7182050 G412-RNA-seq
- GSM7182051 G412R-RNA-seq
- GSM7182052 G450-RNA-seq
- GSM7182053 G452C-RNA-seq
- GSM7182054 G452P-RNA-seq
- GSM7182055 G457-RNA-seq
- GSM7182056 G61-RNA-seq
- GSM7182057 G62-RNA-seq
- GSM7182058 G83-RNA-seq
- GSE229966 Extreme structural heterogeneity rewires glioblastoma chromosomes to sustain patient-specific transcriptional programs 74 samples shares patient-specific, heterogeneity, glioblastoma, chromosomes, structural, programs, extreme, rewires
- GSE278450 Glioblastoma scRNA-seq shows treatment-induced, immune-dependent increase in mesenchymal cancer cells and structural variants in distal neural stem cells 22 samples shares glioblastoma, structural
- GSE270505 Epigenetic heterogeneity and state-specific transcriptional programs determine differential drug response in osteosarcoma [RNA-seq] 19 samples shares heterogeneity, programs
- GSE270506 Epigenetic heterogeneity and state-specific transcriptional programs determine differential drug response in osteosarcoma. 279 samples shares heterogeneity, programs
- GSE309031 Epigenetic heterogeneity and state-specific transcriptional programs determine differential drug response in osteosarcoma [CUT&Run] 85 samples shares heterogeneity, programs
- GSE270503 Epigenetic heterogeneity and state-specific transcriptional programs determine differential drug response in osteosarcoma [Cut&Run] 56 samples shares heterogeneity, programs
- GSE274986 Neurodevelopmental hijacking of oligodendrocyte lineage programs drives glioblastoma infiltration [scMultiome] 26 samples shares glioblastoma, programs
- GSE309595 Longitudinal Analysis of Multiple Myeloma: Therapeutic Response and Immune Microenvironment Dynamics in the Context of Tumor Heterogeneity [scRNA-seq] 270 samples shares heterogeneity
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.