Comprehensive transcriptomic profiling of glioblastoma patient-derived primary tumor cell lines using bulk RNA-sequencing
RNA-seq (gene expression) · human · 49 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
- 49 samples: 45 × Patient-derived GBM cell line vs 4 × Patient-derived normal tissueGroups 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 GSE263588_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 PRJNA1098218 and SRA study SRP500588. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 49 samples.
How we read this: 2 replicated groups read from 49 sample titles; they account for 49 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.
- GSM8194991 Patient-derived GBM cell line-1 Patient-derived GBM cel…
- GSM8194992 Patient-derived GBM cell line-2 Patient-derived GBM cel…
- GSM8194993 Patient-derived GBM cell line-3 Patient-derived GBM cel…
- GSM8194994 Patient-derived GBM cell line-4 Patient-derived GBM cel…
- GSM8194995 Patient-derived GBM cell line-5 Patient-derived GBM cel…
- GSM8194996 Patient-derived GBM cell line-6 Patient-derived GBM cel…
- GSM8194997 Patient-derived GBM cell line-7 Patient-derived GBM cel…
- GSM8194998 Patient-derived GBM cell line-8 Patient-derived GBM cel…
- GSM8194999 Patient-derived GBM cell line-9 Patient-derived GBM cel…
- GSM8195000 Patient-derived GBM cell line-10 Patient-derived GBM cel…
- GSM8195001 Patient-derived GBM cell line-11 Patient-derived GBM cel…
- GSM8195002 Patient-derived GBM cell line-12 Patient-derived GBM cel…
- GSM8195003 Patient-derived GBM cell line-13 Patient-derived GBM cel…
- GSM8195004 Patient-derived GBM cell line-14 Patient-derived GBM cel…
- GSM8195005 Patient-derived GBM cell line-15 Patient-derived GBM cel…
- GSM8195006 Patient-derived GBM cell line-16 Patient-derived GBM cel…
- GSM8195007 Patient-derived GBM cell line-17 Patient-derived GBM cel…
- GSM8195008 Patient-derived GBM cell line-18 Patient-derived GBM cel…
- GSM8195009 Patient-derived GBM cell line-19 Patient-derived GBM cel…
- GSM8195010 Patient-derived GBM cell line-20 Patient-derived GBM cel…
- GSM8195011 Patient-derived GBM cell line-21 Patient-derived GBM cel…
- GSM8195012 Patient-derived GBM cell line-22 Patient-derived GBM cel…
- GSM8195013 Patient-derived GBM cell line-23 Patient-derived GBM cel…
- GSM8195014 Patient-derived GBM cell line-24 Patient-derived GBM cel…
- GSM8195015 Patient-derived GBM cell line-25 Patient-derived GBM cel…
- GSM8195016 Patient-derived GBM cell line-26 Patient-derived GBM cel…
- GSM8195017 Patient-derived GBM cell line-27 Patient-derived GBM cel…
- GSM8195018 Patient-derived GBM cell line-28 Patient-derived GBM cel…
- GSM8195019 Patient-derived GBM cell line-29 Patient-derived GBM cel…
- GSM8195020 Patient-derived GBM cell line-30 Patient-derived GBM cel…
- GSM8195021 Patient-derived GBM cell line-31 Patient-derived GBM cel…
- GSM8195022 Patient-derived normal tissue-1 Patient-derived normal …
- GSM8195023 Patient-derived GBM cell line-32 Patient-derived GBM cel…
- GSM8195024 Patient-derived GBM cell line-33 Patient-derived GBM cel…
- GSM8195025 Patient-derived GBM cell line-34 Patient-derived GBM cel…
- GSM8195026 Patient-derived GBM cell line-35 Patient-derived GBM cel…
- GSM8195027 Patient-derived GBM cell line-36 Patient-derived GBM cel…
- GSM8195028 Patient-derived normal tissue-2 Patient-derived normal …
- GSM8195029 Patient-derived normal tissue-3 Patient-derived normal …
- GSM8195030 Patient-derived GBM cell line-37 Patient-derived GBM cel…
+ 9 more — browse all 49 samples with per-sample file links →
- GSE231555 Splicing and gene expression changes in cell lines treated with splicing switching oligonucleotide targeting TRA2B 46 samples same disease briefing · shares lines
- GSE112648 SOXC factors as suppressors modulate Rho activity to promote neuronal reprogramming of human glioblastoma cells 18 samples same disease briefing · shares glioblastoma
- GSE131928 single cell RNA-seq analysis of adult and paediatric IDH-wildtype Glioblastomas 2 samples same disease briefing · shares glioblastoma
- GSE107560 Ivy Glioblastoma Atlas Project 305 samples same disease briefing · shares glioblastoma
- GSE13041 Gene expression analysis of glioblastomas identifies the major molecular basis for the prognostic benefit of younger age 267 samples same disease briefing · shares glioblastoma
- GSE10878 Integrative Genome-wide Analysis of Glioblastoma. 60 samples same disease briefing · shares glioblastoma
- GSE112650 SOX4/11 Enhances NGN2 Reprogramming Glioblastoma Cells into Neuron Cells by Modulating RhoA and CDC42/RAC1 Pathway Activity 30 samples same disease briefing · shares glioblastoma
- GSE112645 SOXC factors as suppressors modulate Rho activity to promote neuronal reprogramming of human glioblastoma cells 12 samples same disease briefing · shares glioblastoma
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.