Blocking tumor-intrinsic MNK1 kinase restricts metabolic adaptation and diminishes liver metastasis
RNA-seq (gene expression) · mouse · 11 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
- 11 samples: 4 × Cas9CTL vs 4 × sgMKNK1-1 vs 3 × sgMKNK1-2Groups 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
- Blocking tumor-intrinsic MNK1 kinase restricts metabolic adaptation and diminishes liver metastasisScience advances · 2024
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 GSE232359_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 PRJNA971725 and SRA study SRP437294. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 11 samples.
How we read this: 3 replicated groups read from 11 sample titles; they account for 11 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.
- GSM7329376 Cas9CTL_R1 Cas9CTL
- GSM7329377 Cas9CTL_R2 Cas9CTL
- GSM7329378 Cas9CTL_R3 Cas9CTL
- GSM7329379 Cas9CTL_R4 Cas9CTL
- GSM7329380 sgMKNK1-1_R1 sgMKNK1-1
- GSM7329381 sgMKNK1-1_R2 sgMKNK1-1
- GSM7329382 sgMKNK1-1_R3 sgMKNK1-1
- GSM7329383 sgMKNK1-1_R4 sgMKNK1-1
- GSM7329384 sgMKNK1-2_R1 sgMKNK1-2
- GSM7329385 sgMKNK1-2_R2 sgMKNK1-2
- GSM7329386 sgMKNK1-2_R3 sgMKNK1-2
- GSE305462 Rac1 palmitoylation is required for cardiac stress adaptation and regulation of Protein Kinase A signaling 18 samples shares adaptation, kinase
- GSE241770 ACSS2 mediates an epigenetic pathway to regulate maternal Beta-cell adaptation and progression of gestational diabetes (scRNA-Seq) 7899 samples shares adaptation
- GSE215959 Subclonal evolution revealed by single-cell profiles of expressed mutations identifies adaptation mechanisms to immunotherapy in melanoma [M4_aCTLA4_scRNA] 1248 samples shares adaptation
- GSE215960 Subclonal evolution revealed by single-cell profiles of expressed mutations identifies adaptation mechanisms to immunotherapy in melanoma [scRNA-seq] 192 samples shares adaptation
- GSE218178 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance 183 samples shares adaptation
- GSE218173 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance [acid] 150 samples shares adaptation
- GSE248964 Isoform Usage as a Distinct Regulatory Layer Driving Nutrient-Responsive Metabolic Adaptation (RNA-seq) 117 samples shares adaptation
- GSE248864 Hepatic Glucocorticoid Receptor (GR) drives the diurnal adaptation to Caloric Restriction 90 samples shares adaptation
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.