RNA-sea of Smad4 wild-type or Smad4 knockout KvPC PDAC organoids from monocultures or co-cultures with pancreatic stellate cells and RNA-seq of flow-sorted PSCs from the same co-cultures.
RNA-seq (gene expression) · mouse · 35 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
- 35 samples: 35 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
- SMAD4 and KRAS Status Shapes Cancer Cell-Stromal Cross-Talk and Therapeutic Response in Pancreatic CancerCancer research · 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 GSE263081_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 PRJNA1095550 and SRA study SRP499383. 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 35 sample titles: 35 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.
- GSM8185272 1_T95LOH_263KO_mono_org
- GSM8185273 2_T95LOH_264KO_mono_org
- GSM8185274 3_T95LOH_265WT_mono_org
- GSM8185275 4_T93LOH_263KO_mono_org
- GSM8185276 5_T93LOH_264KO_mono_org
- GSM8185277 6_T93LOH_265WT_mono_org
- GSM8185278 7_T95LOH_263KO_cocx_org
- GSM8185279 8_T95LOH_263KO_cocx_fibro
- GSM8185280 9_T95LOH_264KO_cocx_org
- GSM8185281 10_T95LOH_264KO_cocx_fibro
- GSM8185282 11_T95LOH_265WT_cocx_org
- GSM8185283 12_T95LOH_265WT_cocx_fibro
- GSM8185284 13_T93LOH_263KO_cocx_org
- GSM8185285 14_T93LOH_263KO_cocx_fibro
- GSM8185286 15_T93LOH_264KO_cocx_org
- GSM8185287 16_T93LOH_264KO_cocx_fibro
- GSM8185288 17_T93LOH_265WT_cocx_org
- GSM8185289 18_T93LOH_265WT_cocx_fibro
- GSM8185290 19_T95LOH_263KO_cocx_org
- GSM8185291 20_T95LOH_263KO_cocx_fibro
- GSM8185292 21_T95LOH_264KO_cocx_org
- GSM8185293 22_T95LOH_264KO_cocx_fibro
- GSM8185294 23_T95LOH_265WT_cocx_org
- GSM8185295 24_T95LOH_265WT_cocx_fibro
- GSM8185296 25_T93LOH_263KO_cocx_org
- GSM8185297 26_T93LOH_263KO_cocx_fibro
- GSM8185298 27_T93LOH_264KO_cocx_org
- GSM8185299 28_T93LOH_264KO_cocx_fibro
- GSM8185300 29_T93LOH_265WT_cocx_org
- GSM8185301 30_T93LOH_265WT_cocx_fibro
- GSM8185302 31_T95LOH_263KO_mono_org
- GSM8185303 32_T95LOH_265WT_mono_org
- GSM8185304 33_T93LOH_263KO_mono_org
- GSM8185305 34_T93LOH_264KO_mono_org
- GSM8185306 35_T93LOH_265WT_mono_org
- 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 smad4, pdac, monocultures, co-cultures, flow-sorted, pancreatic, wild-type, organoids
- 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 smad4, pdac, pancreatic, wild-type, organoids
- GSE262878 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) KvPC organoids in nu/nu mice 8 samples shares smad4, pdac, pancreatic, wild-type, organoids
- GSE329665 Single-nuclei RNA-sequencing (snRNA-seq) of murine pancreatic tumors derived from the orthotopic transplantation of Smad4 WT or Smad4 KO pancreatic ductal adenocarcinoma (PDAC) KPC (i.e. KrasG12D; p53 mutant) organoids in C57BL/6J mice. 6 samples shares smad4, pdac, pancreatic, organoids
- GSE311286 Analysis of murine normal pancreatic organoids, pancreatitis-derived organoids, and PDAC organoids in complete media and of pancreatitis-derived organoids, and PDAC organoids cultured alone or cocultured with pancreatic stellate cells in reduced media 75 samples shares pdac, pancreatic, organoids
- GSE329640 Bulk RNA-sequencing analyses of multi-stroma flow-sorted from cocultures with murine pancreatitis (P)-derived organoids, PDAC organoids, or PDAC organoids following initial coculture with P organoids (ie P-to-PDAC or sequential). 12 samples shares pdac, flow-sorted, organoids
- GSE290898 Pancreatic gene expression patterns during PDAC development in mice 35 samples shares pdac, pancreatic
- GSE296094 Genomic stratification based on SMAD4 in pancreatic cancer reveals biological implications of aberrant TGFβ signaling and susceptibility to TGFβ inhibition 20 samples shares smad4, pancreatic
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.