Poly-GR impairs translation elongation and increases ribotoxic stress response in C9ORF72-ALS/FTD
RNA-seq (gene expression) · human · 36 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)
- Samples
- 36 samples: 12 conditions, mostly in triplicateGroups 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
- Poly-GR repeats associated with ALS/FTD gene C9ORF72 impair translation elongation and induce a ribotoxic stress response in neuronsScience signaling · 2024
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 GSE230127_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 PRJNA957700 and SRA study SRP433553. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 36 samples.
How we read this: 12 replicated groups read from 36 sample titles; they account for 36 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.
- GSM7187872 i3N, GFP, input, 0min, rep1 i3N, GFP, input, 0min,
- GSM7187873 i3N, GR, input, 0min, rep1 i3N, GR, input, 0min,
- GSM7187874 i3N, GFP, input, 3min, rep1 i3N, GFP, input, 3min,
- GSM7187875 i3N, GR, input, 3min, rep1 i3N, GR, input, 3min,
- GSM7187876 i3N, GFP, input, 0min, rep2 i3N, GFP, input, 0min,
- GSM7187877 i3N, GR, input, 0min, rep2 i3N, GR, input, 0min,
- GSM7187878 i3N, GFP, input, 3min, rep2 i3N, GFP, input, 3min,
- GSM7187879 i3N, GR, input, 3min, rep2 i3N, GR, input, 3min,
- GSM7187880 i3N, GFP, input, 0min, rep3 i3N, GFP, input, 0min,
- GSM7187881 i3N, GR, input, 0min, rep3 i3N, GR, input, 0min,
- GSM7187882 i3N, GFP, input, 3min, rep3 i3N, GFP, input, 3min,
- GSM7187883 i3N, GR, input, 3min, rep3 i3N, GR, input, 3min,
- GSM7187884 i3N, GFP, med, 0min, rep1 i3N, GFP, med, 0min,
- GSM7187885 i3N, GR, med, 0min, rep1 i3N, GR, med, 0min,
- GSM7187886 i3N, GFP, med, 3min, rep1 i3N, GFP, med, 3min,
- GSM7187887 i3N, GR, med, 3min, rep1 i3N, GR, med, 3min,
- GSM7187888 i3N, GFP, heavy, 0min, rep1 i3N, GFP, heavy, 0min,
- GSM7187889 i3N, GR, heavy, 0min, rep1 i3N, GR, heavy, 0min,
- GSM7187890 i3N, GFP, heavy, 3min, rep1 i3N, GFP, heavy, 3min,
- GSM7187891 i3N, GR, heavy, 3min, rep1 i3N, GR, heavy, 3min,
- GSM7187892 i3N, GFP, med, 0min, rep2 i3N, GFP, med, 0min,
- GSM7187893 i3N, GR, med, 0min, rep2 i3N, GR, med, 0min,
- GSM7187894 i3N, GFP, med, 3min, rep2 i3N, GFP, med, 3min,
- GSM7187895 i3N, GR, med, 3min, rep2 i3N, GR, med, 3min,
- GSM7187896 i3N, GFP, heavy, 0min, rep2 i3N, GFP, heavy, 0min,
- GSM7187897 i3N, GR, heavy, 0min, rep2 i3N, GR, heavy, 0min,
- GSM7187898 i3N, GFP, heavy, 3min, rep2 i3N, GFP, heavy, 3min,
- GSM7187899 i3N, GR, heavy, 3min, rep2 i3N, GR, heavy, 3min,
- GSM7187900 i3N, GFP, med, 0min, rep3 i3N, GFP, med, 0min,
- GSM7187901 i3N, GR, med, 0min, rep3 i3N, GR, med, 0min,
- GSM7187902 i3N, GFP, med, 3min, rep3 i3N, GFP, med, 3min,
- GSM7187903 i3N, GR, med, 3min, rep3 i3N, GR, med, 3min,
- GSM7187904 i3N, GFP, heavy, 0min, rep3 i3N, GFP, heavy, 0min,
- GSM7187905 i3N, GR, heavy, 0min, rep3 i3N, GR, heavy, 0min,
- GSM7187906 i3N, GFP, heavy, 3min, rep3 i3N, GFP, heavy, 3min,
- GSM7187907 i3N, GR, heavy, 3min, rep3 i3N, GR, heavy, 3min,
- GSE282665 Human VCP mutant ALS/FTD microglia display immune and lysosomal phenotypes independently of GPNMB 93 samples shares ftd
- GSE251822 A high-fidelity CRISPR-Cas13 system improves abnormalities associated with C9ORF72-linked ALS/FTD 54 samples shares ftd
- GSE283702 A high-fidelity CRISPR-Cas13 system improves abnormalities associated with C9ORF72-linked ALS/FTD 29 samples shares ftd
- GSE247790 Aberrant splicing exonizes C9ORF72 repeat expansion in ALS/FTD 18 samples shares ftd
- GSE296714 TDP-43 loss induces cryptic polyadenylation in ALS/FTD [humphrey-i3-cortical] 12 samples shares ftd
- GSE212630 pTDP-43 levels correlate with cell type specific molecular alterations in the prefrontal cortex of C9orf72 ALS/FTD patients 52 samples shares ftd
- GSE97084 Enhanced Protein Translation Underlies Improved Metabolic and Physical Adaptations to Different Exercise Training Modes in Young and Old Humans 103 samples shares translation
- GSE229535 Translational application of pharmacogenomics for refractory lung cancer II 99 samples shares translation
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.