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Transcriptional Analyses of Acinar- And Ductal-Cell-Derived Pancreatic Cancer

GSE271004 Mus musculus (mouse) RNA-seq (gene expression) 59 samples Submitted 2026/07/01 Platform GPL19057
At a glance

RNA-seq (gene expression) · mouse · 59 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
59 samples: 10 conditions, mostly in triplicateGroups 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.
Summary (written by the submitters)
Pancreatic ductal adenocarcinoma (PDAC) is the most common form of pancreatic cancer, with one of the lowest 5-year survival rates at 10%. From mouse models, PDAC arises from acinar or ductal cells, and previous transcriptomic analyses have identified specific markers of acinar- and ductal-cell-derived PDAC. Although we have developed a more comprehensive understanding of the cellular origin of PDAC from mouse models, this knowledge has not been effectively utilized to classify patient tumors.
Read the full summary ↓
Here, we generated mouse models where acinar or ductal cells, using Ptf1aCreER or Sox9CreER, respectively, expressed oncogenic Kras in the absence of Trp53 or Pten and formed PDAC tumors. Using both in vivo and in vitro methods, we reveal that acinar- and ductal-cell-derived tumors are largely similar to one another with small differences in gene expression. We also found variability in the expression levels of previously predicted markers of cellular origin, and propose a more comprehensive set of transcriptomic markers. Moreover, our acinar-cell-derived PDAC showed gene expression profiles resembling the classical subtype, supporting previous studies, while the ductal-cell-derived PDAC had an expression of both classical and basal subtypes. Overall, our findings demonstrate that acinar and ductal tumors have similar expression profiles and further research is required to identify reliable traits of acinar- and ductal-cell-derived PDAC.
This dataset
Open GSE271004 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE271004_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1129182 and SRA study SRP516650. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
10 conditions, mostly in triplicate
Comp_CC_KTrp53_AC ×20 Comp_CC_KTrp53_DU ×15 Bulk_KTrp53_DU ×5 Bulk_KTrp53_AC ×4 Comp_CC_KPten_DU ×3 Comp_CC_KPten_AC ×3 Drop_CC_KPten_AC ×3 Drop_CC_KPten_DU ×2 +2 more

Supports a between-group comparison across 59 samples.

How we read this: 10 replicated groups read from 59 sample titles; they account for 59 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.

Samples in this study

+ 19 more — browse all 59 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

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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.