Therapeutic radiation drives leptomeningeal dissemination of medulloblastoma [bulkRNA-seq]
RNA-seq (gene expression) · mouse · 54 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
- Mus musculus (mouse)
- Samples
- 54 samples: 54 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.
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 GSE266047_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 PRJNA1105606 and SRA study SRP504463. 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 54 sample titles: 54 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.
- GSM8239780 BL6_1Gy_5hr_Sample2.1 biol rep 1
- GSM8239781 BL6_1Gy_5hr_Sample2.2 biol rep 2
- GSM8239782 BL6_1Gy_5hr_Sample2.3 biol rep 3
- GSM8239783 BL6_1Gy_5hr_Sample2.4 biol rep 4
- GSM8239784 BL6_1Gy_5hr_Sample3.1 biol rep 1
- GSM8239785 BL6_1Gy_5hr_Sample3.2 biol rep 2
- GSM8239786 BL6_1Gy_5hr_Sample3.3 biol rep 3
- GSM8239787 BL6_1Gy_5hr_Sample3.4 biol rep 4
- GSM8239788 BL6_1Gy_5hr_Sample4.1 biol rep 1
- GSM8239789 BL6_1Gy_5hr_Sample4.2 biol rep 2
- GSM8239790 BL6_1Gy_5hr_Sample4.3 biol rep 3
- GSM8239791 BL6_1Gy_5hr_Sample4.4 biol rep 4
- GSM8239792 BL6_Control_Sample1.1 biol rep 1
- GSM8239793 BL6_Control_Sample1.2 biol rep 2
- GSM8239794 BL6_Control_Sample1.3 biol rep 3
- GSM8239795 BL6_Control_Sample1.4 biol rep 4
- GSM8239796 BL6_Control_Sample2.1 biol rep 1
- GSM8239797 BL6_Control_Sample2.2 biol rep 2
- GSM8239798 BL6_Control_Sample2.3 biol rep 3
- GSM8239799 BL6_Control_Sample2.4 biol 4
- GSM8239800 BL6_Control_Sample3.1 biol rep 1
- GSM8239801 BL6_Control_Sample3.2 biol 2
- GSM8239802 BL6_Control_Sample3.3 biol 3
- GSM8239803 BL6_Control_Sample3.4 biol rep 4
- GSM8239804 Ptc_5h_Radiation_Sample_1 biol rep 1
- GSM8239805 Ptc_5h_Radiation_Sample_2 biol rep 2
- GSM8239806 Ptc_5h_Radiation_Sample_3 biol rep 3
- GSM8239807 Ptc_Control_Sample_1 biol rep 1
- GSM8239808 Ptc_Control_Sample_2 biol rep 2
- GSM8239809 Ptc_Control_Sample_3 biol rep 3
- GSM8239810 SmoA1_1Gy_5hr_Sample1.1 biol rep 1
- GSM8239811 SmoA1_1Gy_5hr_Sample1.2 biol rep 2
- GSM8239812 SmoA1_1Gy_5hr_Sample1.3 biol rep 3
- GSM8239813 SmoA1_1Gy_5hr_Sample1.4 biol rep 4
- GSM8239814 SmoA1_1Gy_5hr_Sample2.1 biol rep 1
- GSM8239815 SmoA1_1Gy_5hr_Sample2.2 biol rep 2
- GSM8239816 SmoA1_1Gy_5hr_Sample2.3 biol rep 3
- GSM8239817 SmoA1_1Gy_5hr_Sample2.4 biol rep 4
- GSM8239818 SmoA1_1Gy_5hr_Sample3.1 biol rep 1
- GSM8239819 SmoA1_1Gy_5hr_Sample3.2 biol rep 2
+ 14 more — browse all 54 samples with per-sample file links →
- GSE260659 Genetic modeling of ELP1-associated Sonic hedgehog medulloblastoma identifies MDM2 as a selective therapeutic target 24 samples shares medulloblastoma, therapeutic
- GSE264326 Metastatic medulloblastoma remodels the local leptomeningeal microenvironment to promote further metastatic colonization and growth 11 samples shares medulloblastoma, leptomeningeal
- GSE260851 Genetic modeling of ELP1-associated Sonic hedgehog medulloblastoma identifies MDM2 as a selective therapeutic target 161 samples shares medulloblastoma, therapeutic
- GSE296145 SPEN loss drives extra-follicular diffuse large B cell lymphoma with female-specific lethality and TLR pathway therapeutic vulnerabilities 36 samples shares therapeutic, drives
- GSE307773 Oncogenic MAPK signalling induces epithelial cell state change and therapeutic resistance in vivo [RNA-Seq] 175 samples shares therapeutic
- GSE223323 Enterocyte like differentiation defines metabolic gene signatures of CMS3 colorectal cancers and provides therapeutic vulnerability 148 samples shares therapeutic
- GSE260623 Germline ELP1 deficiency sensitizes cerebellar granule neuron progenitors to SHH medulloblastoma [bulkRNA] 91 samples shares medulloblastoma
- GSE234245 Multiomic Profile Integration Reveals Early Signatures of Amyotrophic Lateral Sclerosis and Suggests the MAPK Pathway as a Therapeutic Target [RNA-Seq] 79 samples shares therapeutic
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.