Coordination between the eIF2 kinase GCN2 and p53 signaling supports purine metabolism and the progression of prostate cancer
RNA-seq (gene expression) · human · 16 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)
- Topic
- Prostate cancerThis series is part of our curated briefing on it.
- Samples
- 16 samples: 4 × WT Vehicle vs 4 × WT GCN2iB vs 4 × p53 KO Vehicle vs 4 × p53 KO GCN2iBGroups 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
- Coordination between the eIF2 kinase GCN2 and p53 signaling supports purine metabolism and the progression of prostate cancerScience 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 GSE260934_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 PRJNA1084065 and SRA study SRP493483. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8128365 WT Vehicle 1 WT Vehicle
- GSM8128366 WT Vehicle 2 WT Vehicle
- GSM8128367 WT Vehicle 3 WT Vehicle
- GSM8128368 WT Vehicle 4 WT Vehicle
- GSM8128369 WT GCN2iB 1 WT GCN2iB
- GSM8128370 WT GCN2iB 2 WT GCN2iB
- GSM8128371 WT GCN2iB 3 WT GCN2iB
- GSM8128372 WT GCN2iB 4 WT GCN2iB
- GSM8128373 p53 KO Vehicle 1 p53 KO Vehicle
- GSM8128374 p53 KO Vehicle 2 p53 KO Vehicle
- GSM8128375 p53 KO Vehicle 3 p53 KO Vehicle
- GSM8128376 p53 KO Vehicle 4 p53 KO Vehicle
- GSM8128377 p53 KO GCN2iB 1 p53 KO GCN2iB
- GSM8128378 p53 KO GCN2iB 2 p53 KO GCN2iB
- GSM8128379 p53 KO GCN2iB 3 p53 KO GCN2iB
- GSM8128380 p53 KO GCN2iB 4 p53 KO GCN2iB
- GSE115501 RNA sequencing on circulating tumor cells from prostate cancer patients 136 samples same disease briefing · shares prostate
- GSE222467 The RNA binding proteins LARP4A and LARP4B promote tumour growth and metastasis in prostate cancer and osteosarcoma 12 samples same disease briefing · shares prostate
- GSE300947 A novel six-biomarker panel identified from male breast cancer-associated fibroblasts demonstrates prognostic power for prostate tumors 6 samples same disease briefing · shares prostate
- GSE120181 Human prostate cancer cell line, 22Rv1: Control vs. luteolin treatment 2 samples same disease briefing · shares prostate
- GSE242541 ONECUT2 is a druggable driver of luminal to basal breast cancer plasticity 12 samples same disease briefing
- GSE71008 Plasma extracellular RNA profiles in healthy and cancer patients 192 samples same disease briefing
- GSE246354 GCN2 is a determinant of the response to WEE1 kinase inhibition in small-cell lung cancer 18 samples shares gcn2, kinase
- GSE301995 The tyrosine kinase inhibitor GNF-7 targets senescent cells through allosteric activation of GCN2 15 samples shares gcn2, kinase
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.