Glutamine recovers stress granules after cellular starvation to help mount cancer stress response
RNA-seq (gene expression) · human · 10 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
- 10 samples: 3 × U2OS cells, Arsenite vs 3 × EBSS+VBL+Ars vs 3 × EBSS+VBL+Gln+ArsGroups 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 GSE234436_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 PRJNA981423 and SRA study SRP441776. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 9 samples.
How we read this: 3 replicated groups read from 10 sample titles; they account for 9 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.
- GSM7468637 U2OS cells, Arsenite 1 U2OS cells, Arsenite
- GSM7468638 U2OS cells, Arsenite 2 U2OS cells, Arsenite
- GSM7468639 U2OS cells, Arsenite 3 U2OS cells, Arsenite
- GSM7468640 U2OS cells, starved_Ars: EBSS+VBL+Ars 1 EBSS+VBL+Ars
- GSM7468641 U2OS cells, starved_Ars: EBSS+VBL+Ars 2 EBSS+VBL+Ars
- GSM7468642 U2OS cells, starved_Ars: EBSS+VBL+Ars 3 EBSS+VBL+Ars
- GSM7468643 U2OS cells, starved_Ars_glut: EBSS+VBL+Gln+Ars 1 EBSS+VBL+Gln+Ars
- GSM7468644 U2OS cells, starved_Ars_glut: EBSS+VBL+Gln+Ars 2 EBSS+VBL+Gln+Ars
- GSM7468645 U2OS cells, starved_Ars_glut: EBSS+VBL+Gln+Ars 3 EBSS+VBL+Gln+Ars
- GSM7468646 U2OS cells, noTreat
- GSE288910 RNA structure directs RNA partitioning and is actively disrupted inside stress granules to enable cellular recovery 126 samples shares granules, cellular, stress
- GSE240735 The expression of Welander distal myopathy-related TIA1 mutation exacerbates the dynamics of P-bodies and stress granules under oxidative stress 30 samples shares granules, stress
- GSE288717 Glutamine transporters regulate prostate cancer radiosensitivity through NUPR1-mediated stress response 24 samples shares glutamine, stress
- GSE298032 Host-Directed Antiviral Activity of SB2960 Through Selective Induction and Remodeling of Stress Granules 22 samples shares granules, stress
- GSE254629 G3BP2B stress granules regulate mRNA expression under ER stress [RNAseq_Exp2] 20 samples shares granules, stress
- GSE261143 Transcriptomic analysis of RNA Granules and Exosomes: Unmasking the Intra- and Intercellular organelle overlap in Huntington's Disease 20 samples shares granules, cellular
- GSE244751 ALS-associated FUS mutation reshapes the RNA and protein composition and dynamic of Stress Granules. 16 samples shares granules, stress
- GSE226786 YTHDF1 mitigates acute kidney injury via safeguarding m6A-methylated mRNAs in stress granules of renal tubules [RNA-Seq] 15 samples shares granules, stress
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.