Differential expression gene signature between primary tumors and metastatic tumors in PDAC and BC mouse models [Bulk Tissue RNA-Seq]
RNA-seq (gene expression) · mouse · 20 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
- 20 samples: 20 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
- The glutathione S-transferase Gstt1 drives survival and dissemination in metastasesNature cell biology · 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 GSE232196_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 PRJNA971202 and SRA study SRP436894. 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 20 sample titles: 20 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.
- GSM7317706 CF6-primary
- GSM7317707 CF6-2 lung met
- GSM7317708 CF6-3 liver met
- GSM7317709 CF13-primary
- GSM7317710 CF13-3 lung met
- GSM7317711 CF13-2 liver met
- GSM7317712 CF15-primary
- GSM7317713 CF15-2 liver met
- GSM7317714 CF15-3 lung met
- GSM7317715 CF16-primary
- GSM7317716 CF16-2 liver met
- GSM7317717 CF16-3 lung met
- GSM7317718 4T1-primary
- GSM7317719 4T1-1 lung met
- GSM7317720 4T2-primary
- GSM7317721 4T2-1 lung met
- GSM7317722 4T3-primary
- GSM7317723 4T3-1 lung met
- GSM7317724 4T4-primary
- GSM7317725 4T4-1 lung met
- GSE262879 Single-cell RNA-sequencing of murine pancreatic tumors derived from the orthotopic transplantation of Smad4 wild-type (WT) or Smad4 knockout (KO) pancreatic ductal adenocarcinoma (PDAC) KPC organoids in nu/nu mice. 18 samples shares pdac, rna-seq
- GSE263080 RNA-sea of Smad4 wild-type or Smad4 knockout KPC PDAC organoids from monocultures or co-cultures with pancreatic stellate cells and RNA-seq of flow-sorted PSCs from the same co-cultures. 44 samples shares pdac, rna-seq
- GSE234245 Multiomic Profile Integration Reveals Early Signatures of Amyotrophic Lateral Sclerosis and Suggests the MAPK Pathway as a Therapeutic Target [RNA-Seq] 79 samples shares signature, rna-seq
- GSE301299 Multi-omics analysis identifies intrinsic Trp53 driven metastatic breast cancer subtypes [RNA-seq] 51 samples shares metastatic, rna-seq
- GSE303692 A plastic EMP1⁺ to LGR5⁺ cell state conversion as a therapeutic bypass to KRAS-G12D inhibition in metastatic colorectal cancer [RNA-Seq] 24 samples shares metastatic, rna-seq
- GSE297298 Single-cell RNA-sequencing identifies anti-cancer immune phenotypes in the early lung metastatic niche during breast cancer 18 samples shares metastatic, rna-seq
- GSE272930 Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development [RNA-Seq blood] 15 samples shares signature, rna-seq
- GSE273440 A tumor-associated photoreceptor signature unifies distinct central nervous system malignancies [scRNA-seq] 13 samples shares signature, rna-seq
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.