Obesity promotes inflammatory, metabolic, and proliferative transcriptional programs in orthotopically transplanted murine colon tumors
RNA-seq (gene expression) · mouse · 15 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
- 15 samples: 15 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
- Obesity promotes conserved inflammatory and metabolic transcriptional programs in colon tumors: evidence from mouse models and the ColoCare Study Patient CohortThe American journal of clinical nutrition · 2025
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 GSE284066_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 PRJNA1196938 and SRA study SRP550871. 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 15 sample titles: 15 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.
- GSM8677023 EG164-EpCAM-Control
- GSM8677024 EG167-EpCAM-Control
- GSM8677025 EG171-EpCAM-Control
- GSM8677026 EG175-EpCAM-Control
- GSM8677027 EG226-EpCAM-Control
- GSM8677028 EG227-EpCAM-Control
- GSM8677029 EG229-EpCAM-Control
- GSM8677030 EG235-EpCAM-Control
- GSM8677031 EG186-EpCAM-Obese
- GSM8677032 EG189-EpCAM-Obese
- GSM8677033 EG195-EpCAM-Obese
- GSM8677034 EG239-EpCAM-Obese
- GSM8677035 EG243-EpCAM-Obese
- GSM8677036 EG250-EpCAM-Obese
- GSM8677037 EG251-EpCAM-Obese
- GSE254704 Skeletal muscle cystathionine γ-lyase deficiency promotes obesity and insulin resistance and results in hyperglycemia and skeletal muscle injury upon HFD in mice 32 samples shares promotes, obesity
- GSE242882 CPEB2-activated Prdm16 translation promotes brown adipocyte function and prevents obesity 22 samples shares promotes, obesity
- GSE295816 Tissue factor pathway inhibitor promotes the migration, proliferation and colonization of MSCs by regulating CXCL12/CXCR4 signaling pathway 20 samples shares promotes, colon
- GSE301448 Epigenetic Reactivation of CNS Endothelial Developmental Programs Triggers Adult Brain Angiogenesis, Promotes Post-Stroke Revascularization and Neuroregeneration [RNAseq-Stroke] 18 samples shares promotes, programs
- GSE334940 Tissue nanotransfection-mediated induction of neurogenic programs promotes myoprotective responses in denervated skeletal muscle 15 samples shares promotes, programs
- GSE228457 IL-7 mediated immunoregulatory feedback loop promotes dampening of immune effector functions by hypoinflammatory monocytes. 305 samples shares promotes
- GSE278050 KLF13 promotes SLE Pathogenesis by modifying chromatin accessibility of key proinflammatory cytokine genes [RNA-seq] 42 samples shares promotes
- GSE218178 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance 183 samples shares promotes
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.