A subcellular map of translational machinery composition and regulation at the single-molecule level [ALIBi_Nmd3_Gnl3_KD]
RNA-seq (gene expression) · mouse · 17 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
- 17 samples: 17 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.
- Paper
- A subcellular map of translational machinery composition and regulation at the single-molecule levelScience (New York, N.Y.) · 2025
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 GSE283892_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 PRJNA1195972 and SRA study SRP550293. 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 17 sample titles: 17 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.
- GSM8673910 whole-cell RNA, endoplasmic reticulum, scramble siRNA, biol rep 1 [ALIBi_Nmd3_Gnl3_KD_C1L]
- GSM8673911 ribosome-bound RNA, endoplasmic reticulum, scramble siRNA, biol rep 2 [ALIBi_Nmd3_Gnl3_KD_C2E]
- GSM8673912 whole-cell RNA, endoplasmic reticulum, scramble siRNA, biol rep 2 [ALIBi_Nmd3_Gnl3_KD_C2L]
- GSM8673913 ribosome-bound RNA, endoplasmic reticulum, scramble siRNA, biol rep 3 [ALIBi_Nmd3_Gnl3_KD_C3E]
- GSM8673914 whole-cell RNA, endoplasmic reticulum, scramble siRNA, biol rep 3 [ALIBi_Nmd3_Gnl3_KD_C3L]
- GSM8673915 ribosome-bound RNA, endoplasmic reticulum, Gnl3 siRNA, biol rep 1 [ALIBi_Nmd3_Gnl3_KD_G1E]
- GSM8673916 whole-cell RNA, endoplasmic reticulum, Gnl3 siRNA, biol rep 1 [ALIBi_Nmd3_Gnl3_KD_G1L]
- GSM8673917 ribosome-bound RNA, endoplasmic reticulum, Gnl3 siRNA, biol rep 2 [ALIBi_Nmd3_Gnl3_KD_G2E]
- GSM8673918 whole-cell RNA, endoplasmic reticulum, Gnl3 siRNA, biol rep 2 [ALIBi_Nmd3_Gnl3_KD_G2L]
- GSM8673919 ribosome-bound RNA, endoplasmic reticulum, Gnl3 siRNA, biol rep 3 [ALIBi_Nmd3_Gnl3_KD_G3E]
- GSM8673920 whole-cell RNA, endoplasmic reticulum, Gnl3 siRNA, biol rep 3 [ALIBi_Nmd3_Gnl3_KD_G3L]
- GSM8673921 ribosome-bound RNA, endoplasmic reticulum, Nmd3 siRNA, biol rep 1 [ALIBi_Nmd3_Gnl3_KD_N1E]
- GSM8673922 whole-cell RNA, endoplasmic reticulum, Nmd3 siRNA, biol rep 1 [ALIBi_Nmd3_Gnl3_KD_N1L]
- GSM8673923 ribosome-bound RNA, endoplasmic reticulum, Nmd3 siRNA, biol rep 2 [ALIBi_Nmd3_Gnl3_KD_N2E]
- GSM8673924 whole-cell RNA, endoplasmic reticulum, Nmd3 siRNA, biol rep 2 [ALIBi_Nmd3_Gnl3_KD_N2L]
- GSM8673925 ribosome-bound RNA, endoplasmic reticulum, Nmd3 siRNA, biol rep 3 [ALIBi_Nmd3_Gnl3_KD_N3E]
- GSM8673926 whole-cell RNA, endoplasmic reticulum, Nmd3 siRNA, biol rep 3 [ALIBi_Nmd3_Gnl3_KD_N3L]
- GSE283890 A subcellular map of translational machinery composition and regulation at the single-molecule level [ALIBi_Lsg1_KD] 12 samples shares single-molecule, translational, subcellular, composition, machinery, level
- GSE283888 A subcellular map of translational machinery composition and regulation at the single-molecule level [ALIBi_ER_vs_cyto] 12 samples shares single-molecule, translational, subcellular, composition, machinery, level
- GSE267192 PPARγ-dependent Remodeling of Translational Machinery in Adipose Progenitors is Impaired in Obesity [scRNA-seq] 12 samples shares translational, machinery
- GSE268058 PPARγ-dependent Remodeling of Translational Machinery in Adipose Progenitors is Impaired in Obesity 24 samples shares translational, machinery
- GSE263902 The translational landscape of mouse oocytes and preimplantation embryos revealed by high-resolution ribosome profiling 272 samples shares translational
- GSE293404 A novel translational in-silico indication discovery framework identifies indications and predictive biomarkers for cenerimod 72 samples shares translational
- GSE249875 Gene-environment interaction elicits dystonia-like features and impaired translational regulation in a DYT-TOR1A mouse model (RNA-Seq) 72 samples shares translational
- GSE313065 A Polyamine-mediated Posttranslational Modification Required for Macrophage Tissue Residency 47 samples shares translational
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.