Effect of ATP7A knockdown on gene expression in glioma stem cells
RNA-seq (gene expression) · human · 12 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
- GlioblastomaThis series is part of our curated briefing on it.
- Samples
- 12 samples: 6 conditions, mostly in duplicateGroups 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
- Glioblastoma stem cells resist cuproptosis with circadian variation of copper levelsThe Journal of clinical investigation · 2026
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 GSE278671_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 PRJNA1168173 and SRA study SRP536307. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8552734 GSC387, shCONT, replicate 1 GSC387, shCONT,
- GSM8552735 GSC387, shCONT, replicate 2 GSC387, shCONT,
- GSM8552736 GSC387, shATP7A, replicate 1 GSC387, shATP7A,
- GSM8552737 GSC387, shATP7A, replicate 2 GSC387, shATP7A,
- GSM8552738 GSC3565, shCONT, replicate 1 GSC3565, shCONT,
- GSM8552739 GSC3565, shCONT, replicate 2 GSC3565, shCONT,
- GSM8552740 GSC3565, shATP7A, replicate 1 GSC3565, shATP7A,
- GSM8552741 GSC3565, shATP7A, replicate 2 GSC3565, shATP7A,
- GSM8552742 GSC738, shCONT, replicate 1 GSC738, shCONT,
- GSM8552743 GSC738, shCONT, replicate 2 GSC738, shCONT,
- GSM8552744 GSC738, shATP7A, replicate 1 GSC738, shATP7A,
- GSM8552745 GSC738, shATP7A, replicate 2 GSC738, shATP7A,
- GSE231555 Splicing and gene expression changes in cell lines treated with splicing switching oligonucleotide targeting TRA2B 46 samples same disease briefing
- GSE112648 SOXC factors as suppressors modulate Rho activity to promote neuronal reprogramming of human glioblastoma cells 18 samples same disease briefing
- GSE131928 single cell RNA-seq analysis of adult and paediatric IDH-wildtype Glioblastomas 2 samples same disease briefing
- GSE13041 Gene expression analysis of glioblastomas identifies the major molecular basis for the prognostic benefit of younger age 267 samples same disease briefing
- GSE107560 Ivy Glioblastoma Atlas Project 305 samples same disease briefing
- GSE112650 SOX4/11 Enhances NGN2 Reprogramming Glioblastoma Cells into Neuron Cells by Modulating RhoA and CDC42/RAC1 Pathway Activity 30 samples same disease briefing
- GSE112645 SOXC factors as suppressors modulate Rho activity to promote neuronal reprogramming of human glioblastoma cells 12 samples same disease briefing
- GSE10878 Integrative Genome-wide Analysis of Glioblastoma. 60 samples same disease briefing
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.