Histone serotonylation regulates ependymoma tumorigenesis through neurodevelopmental pathways [RNA-seq]
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 12 samples: 3 × mouse non-tumor cortex tissue, vs 3 × mouse ZFTA-RELA ependymoma tumor, vs 3 × mouse ZFTA-RELA ependymoma tumor, ETV5 overexpression vs 3 × mouse ZFTA-RELA ependymoma tumor, NPY overexpressionGroups 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
- Histone serotonylation regulates ependymoma tumorigenesisNature · 2024
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 GSE246031_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 PRJNA1031368 and SRA study SRP468069. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 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.
- GSM7854112 mouse non-tumor cortex tissue, rep1 mouse non-tumor cortex …
- GSM7854113 mouse non-tumor cortex tissue, rep2 mouse non-tumor cortex …
- GSM7854114 mouse non-tumor cortex tissue, rep3 mouse non-tumor cortex …
- GSM7854115 mouse ZFTA-RELA ependymoma tumor, rep1 mouse ZFTA-RELA ependym…
- GSM7854116 mouse ZFTA-RELA ependymoma tumor, rep2 mouse ZFTA-RELA ependym…
- GSM7854117 mouse ZFTA-RELA ependymoma tumor, rep3 mouse ZFTA-RELA ependym…
- GSM7854118 mouse ZFTA-RELA ependymoma tumor, ETV5 overexpression rep1 mouse ZFTA-RELA ependym…
- GSM7854119 mouse ZFTA-RELA ependymoma tumor, ETV5 overexpression rep2 mouse ZFTA-RELA ependym…
- GSM7854120 mouse ZFTA-RELA ependymoma tumor, ETV5 overexpression rep3 mouse ZFTA-RELA ependym…
- GSM7854121 mouse ZFTA-RELA ependymoma tumor, NPY overexpression rep1 mouse ZFTA-RELA ependym…
- GSM7854122 mouse ZFTA-RELA ependymoma tumor, NPY overexpression rep2 mouse ZFTA-RELA ependym…
- GSM7854123 mouse ZFTA-RELA ependymoma tumor, NPY overexpression rep3 mouse ZFTA-RELA ependym…
- GSE246033 Histone serotonylation regulates ependymoma tumorigenesis through neurodevelopmental pathways 34 samples shares neurodevelopmental, serotonylation, tumorigenesis, ependymoma, histone
- GSE297245 Prenatal and postnatal effects of gestational immune activation on synaptic and neurodevelopmental pathways via epigenetic mechanisms (RNA-seq) 84 samples shares neurodevelopmental, rna-seq
- GSE279089 Molecular dynamics driving phenotypic divergence among KRAS mutants in pancreatic tumorigenesis [RNA-Seq] 76 samples shares tumorigenesis, rna-seq
- GSE280835 Divergent FOXA1 mutations drive prostate tumorigenesis or therapy-resistant intra-luminal plasticity [RNA-Seq] 38 samples shares tumorigenesis, rna-seq
- GSE239469 Condensate-promoting ENL mutation induces tumorigenesis via chromatin remodeling [RNA-seq] 28 samples shares tumorigenesis, rna-seq
- GSE269506 The interleukin 22–oncostatin M axis promotes intestinal inflammation and tumorigenesis [Colon_Tissue_BulkRNA-seq] 22 samples shares tumorigenesis, rna-seq
- GSE286287 Unbalanced chromatin binding of Polycomb complexes drives neurodevelopmental disorders [RNA-Seq] 18 samples shares neurodevelopmental, rna-seq
- GSE278097 Remodeling of tissue-resident macrophages by MEF2D-expressing cancer precursors primes for liver tumorigenesis [RNA-Seq] 17 samples shares tumorigenesis, rna-seq
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.