Activity-dependent ribosome profiling reveals the landscape of canonical and non-canonical translation in brain tissue [Ribo and 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 × Ribo-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, TTX, vs 3 × Ribo-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, cLTP, vs 3 × RNA-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, TTX, vs 3 × RNA-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, cLTP,Groups 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
- Activity-dependent ribosome profiling reveals the landscape of canonical and non-canonical translation in brain tissueNature communications · 2026
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 GSE295656_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 PRJNA1255544 and SRA study SRP581294. 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.
- GSM8954743 Ribo-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, TTX, rep 1 Ribo-seq, Postnatal day…
- GSM8954744 Ribo-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, TTX, rep 2 Ribo-seq, Postnatal day…
- GSM8954745 Ribo-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, TTX, rep 3 Ribo-seq, Postnatal day…
- GSM8954746 Ribo-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, cLTP, rep 1 Ribo-seq, Postnatal day…
- GSM8954747 Ribo-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, cLTP, rep 2 Ribo-seq, Postnatal day…
- GSM8954748 Ribo-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, cLTP, rep 3 Ribo-seq, Postnatal day…
- GSM8954749 RNA-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, TTX, rep 1 RNA-seq, Postnatal day …
- GSM8954750 RNA-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, TTX, rep 2 RNA-seq, Postnatal day …
- GSM8954751 RNA-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, TTX, rep 3 RNA-seq, Postnatal day …
- GSM8954752 RNA-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, cLTP, rep 1 RNA-seq, Postnatal day …
- GSM8954753 RNA-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, cLTP, rep 2 RNA-seq, Postnatal day …
- GSM8954754 RNA-seq, Postnatal day 5 mice Organotypic hippocampus slice culture, EGFP-L10a, Ha-GFPnanobody-HALO-PEST, cLTP, rep 3 RNA-seq, Postnatal day …
- GSE317977 Activity-dependent ribosome profiling reveals the landscape of canonical and non-canonical translation in brain tissue 22 samples shares activity-dependent, non-canonical, translation, canonical, ribosome, brain, ribo
- GSE159295 Translation-dependent and independent mRNA decay occur through mutually exclusive pathways that are defined by ribosome density during T Cell activation [RNA-Seq] 105 samples shares translation, ribosome, rna-seq, ribo
- GSE138616 Ribosome Profiling Reveals MK-801-Induced Differential Translation in the Prefrontal Cortex of Acute MK-801-Exposed Male Mice 8 samples shares translation, ribosome, ribo
- GSE263902 The translational landscape of mouse oocytes and preimplantation embryos revealed by high-resolution ribosome profiling 272 samples shares translation, ribosome, ribo
- GSE281318 Wild type and tumor-derived mutant p53 share a non-canonical mode of gene occupancy [RNA-seq] 35 samples shares non-canonical, canonical, rna-seq
- GSE291652 Codon-specific ribosome stalling reshapes translational dynamics during branched-chain amino acid starvation 18 samples shares translation, ribosome, ribo
- GSE274479 Non-Canonical PRC1.1 is required for the activity of Menin-MLL1 Inhibitors in NUP98-Rearranged AML [RNA-seq] 15 samples shares non-canonical, canonical, rna-seq
- GSE249979 Non-canonical PRC1.1 licenses transcriptional response to enable Treg plasticity in immune adaptation [RNA-Seq] 12 samples shares non-canonical, canonical, 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.