Growth of subcutaneous MC38 colorectal cancer triggers mild cachexia
RNA-seq (gene expression) · mouse · 8 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
- 8 samples: 4 × Control vs 4 × scMC38Groups 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.
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 GSE319517_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 PRJNA1423661 and SRA study SRP677051. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 2 replicated groups read from 8 sample titles; they account for 8 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.
- GSM9519003 Control rep 1 Control
- GSM9519004 Control rep 2 Control
- GSM9519005 Control rep 3 Control
- GSM9519006 Control rep 4 Control
- GSM9519007 scMC38 rep 1 scMC38
- GSM9519008 scMC38 rep 2 scMC38
- GSM9519009 scMC38 rep 3 scMC38
- GSM9519010 scMC38 rep 4 scMC38
- GSE324386 Transcriptomic profiling of CRISPR-Cas9 knockout of RAD51D, LIMCH1, and BRD9 in MC38 colorectal cancer cells reveals regulation of PD-L1 expression 29 samples shares mc38, colorectal
- GSE316313 Single-cell RNA sequencing of MC38 subcutaneous allograft tumors in C57BL/6J mice treated with FOLFOX alone or in combination with a composite probiotics 9 samples shares mc38, subcutaneous
- GSE276018 Integrated Multi-Omics Analysis Reveals Epigenetic and Sex-Specific Alterations in Colorectal Cancer Cachexia 88 samples shares colorectal, cachexia
- GSE313112 Inhibition of METTL3 by STC-15 induces RNA misprocessing that results in dsRNA formation and activates innate immunity [RNA-Seq MC38] 69 samples shares mc38
- GSE253938 Transcriptomic profiling of Adjacents CAFs of MC38 tumor cells on murine MC38 liver metastasis sections by NanoString GeoMX DSP 27 samples shares mc38
- GSE253937 Transcriptomic profiling of MC38 tumor cells on murine MC38 liver metastasis sections by NanoString GeoMX DSP 27 samples shares mc38
- GSE274825 RNA sequencing of MC38 tumor cells from control-diet- and high-fat-diet-fed C57BL/6J mice 10 samples shares mc38
- GSE313004 microRNA-25 drives initial resistance to immune checkpoint therapy by repressing innate and humoral immunity via Syndecan3 [single_cell_RNA_seq_MC38] 7 samples shares mc38
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.