Ceramides drive colorectal cancer metastasis through a revival stemness program [BulkRNAseq_HFD]
RNA-seq (gene expression) · mouse · 23 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
- 23 samples: 12 × Colon, GFP-N, vs 11 × Colon, GFP-P,Groups 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 GSE286167_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 PRJNA1208039 and SRA study SRP556070. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 23 samples.
How we read this: 2 replicated groups read from 23 sample titles; they account for 23 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.
- GSM8720077 Colon, GFP-N, rep1 Colon, GFP-N,
- GSM8720078 Colon, GFP-N, rep2 Colon, GFP-N,
- GSM8720079 Colon, GFP-N, rep3 Colon, GFP-N,
- GSM8720080 Colon, GFP-N, rep4 Colon, GFP-N,
- GSM8720081 Colon, GFP-N, rep5 Colon, GFP-N,
- GSM8720082 Colon, GFP-N, rep6 Colon, GFP-N,
- GSM8720083 Colon, GFP-P, rep1 Colon, GFP-P,
- GSM8720084 Colon, GFP-P, rep2 Colon, GFP-P,
- GSM8720085 Colon, GFP-P, rep3 Colon, GFP-P,
- GSM8720086 Colon, GFP-P, rep4 Colon, GFP-P,
- GSM8720087 Colon, GFP-P, rep5 Colon, GFP-P,
- GSM8720088 Colon, GFP-N, rep7 Colon, GFP-N,
- GSM8720089 Colon, GFP-N, rep8 Colon, GFP-N,
- GSM8720090 Colon, GFP-N, rep9 Colon, GFP-N,
- GSM8720091 Colon, GFP-N, rep10 Colon, GFP-N,
- GSM8720092 Colon, GFP-N, rep11 Colon, GFP-N,
- GSM8720093 Colon, GFP-N, rep12 Colon, GFP-N,
- GSM8720094 Colon, GFP-P, rep6 Colon, GFP-P,
- GSM8720095 Colon, GFP-P, rep7 Colon, GFP-P,
- GSM8720096 Colon, GFP-P, rep8 Colon, GFP-P,
- GSM8720097 Colon, GFP-P, rep9 Colon, GFP-P,
- GSM8720098 Colon, GFP-P, rep10 Colon, GFP-P,
- GSM8720099 Colon, GFP-P, rep11 Colon, GFP-P,
- GSE286166 Ceramides drive colorectal cancer metastasis through a revival stemness program [BulkRNAseq_CRISPR] 34 samples shares colorectal, metastasis, bulkrnaseq, ceramides, stemness, revival, program
- GSE285873 Ceramides drive colorectal cancer metastasis through a revival stemness program [scRNA-seq] 10 samples shares colorectal, metastasis, ceramides, stemness, revival, program
- GSE285872 Ceramides drive colorectal cancer metastasis through a revival stemness program [ATAC-seq] 12 samples shares colorectal, metastasis, ceramides, stemness, revival, program
- GSE306627 TGFβ signaling in cancer-associated fibroblasts drives a hepatic gp130-dependent pro-metastatic inflammatory program in colorectal cancer 42 samples shares colorectal, program
- GSE327176 Single-cell transcriptomic profiling unveils tumor-mediated reprogramming of neutrophils and their unique vulnerability that inhibits metastasis 25 samples shares metastasis, program
- GSE266900 Cxcr3 promotes protection from colorectal cancer liver metastasis by driving NK infiltration and plasticity 18 samples shares colorectal, metastasis
- GSE299638 Tyk2 controls immunosurveillance of colorectal cancer liver metastasis 18 samples shares colorectal, metastasis
- GSE290752 Lineage Plasticity Driven by GATA6 Loss Fuels Colorectal Cancer Metastasis [RNA-seq_met] 15 samples shares colorectal, metastasis
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.