ROR2 regulates cellular plasticity in pancreatic neoplasia and adenocarcinoma [RNA-seq isoAC]
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 3 × Ptf1aERT, vs 3 × Ptf1aERT;K*, vs 3 × Ptf1aERT;Pdx1f/f, vs 3 × Ptf1aERT;K*;Pdx1f/f,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.
- Paper
- ROR2 Regulates Cellular Plasticity in Pancreatic Neoplasia and AdenocarcinomaCancer discovery · 2024
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 GSE253927_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 PRJNA1067685 and SRA study SRP485310. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8030533 Ptf1aERT, replicate 1 Ptf1aERT,
- GSM8030534 Ptf1aERT, replicate 2 Ptf1aERT,
- GSM8030535 Ptf1aERT, replicate 3 Ptf1aERT,
- GSM8030536 Ptf1aERT;K*, replicate 1 Ptf1aERT;K*,
- GSM8030537 Ptf1aERT;K*, replicate 2 Ptf1aERT;K*,
- GSM8030538 Ptf1aERT;K*, replicate 3 Ptf1aERT;K*,
- GSM8030539 Ptf1aERT;Pdx1f/f, replicate 1 Ptf1aERT;Pdx1f/f,
- GSM8030540 Ptf1aERT;Pdx1f/f, replicate 2 Ptf1aERT;Pdx1f/f,
- GSM8030541 Ptf1aERT;Pdx1f/f, replicate 3 Ptf1aERT;Pdx1f/f,
- GSM8030542 Ptf1aERT;K*;Pdx1f/f, replicate 1 Ptf1aERT;K*;Pdx1f/f,
- GSM8030543 Ptf1aERT;K*;Pdx1f/f, replicate 2 Ptf1aERT;K*;Pdx1f/f,
- GSM8030544 Ptf1aERT;K*;Pdx1f/f, replicate 3 Ptf1aERT;K*;Pdx1f/f,
- GSE248585 A conserved epithelial wound-like transcriptional program driven by FOSL1 underlies malignant progression of pancreatic ductal adenocarcinoma (ssRNA-Seq) 46 samples shares adenocarcinoma, pancreatic, rna-seq
- 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 adenocarcinoma, pancreatic, rna-seq
- GSE293383 Viscoelastic Extracellular Matrix Enhances Epigenetic Remodeling and Cellular Plasticity [RNA-seq] 12 samples shares plasticity, cellular, rna-seq
- GSE266918 RNA-seq expression analysis of liver, adipose, skeletal muscle, heart, and pancreatic islets from DO founder strain mice fed high-fat, high-sugar diet. [heart] 63 samples shares pancreatic, rna-seq
- GSE266923 RNA-seq expression analysis of liver, adipose, skeletal muscle, heart, and pancreatic islets from DO founder strain mice fed high-fat, high-sugar diet. [liver] 61 samples shares pancreatic, rna-seq
- GSE266920 RNA-seq expression analysis of liver, adipose, skeletal muscle, heart, and pancreatic islets from DO founder strain mice fed high-fat, high-sugar diet. [Adipose] 61 samples shares pancreatic, rna-seq
- GSE270144 Disabling leading and lagging strand histone transmission results in parental histones loss and reduced cell plasticity and viability [RNA-Seq] 60 samples shares plasticity, 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 pancreatic, 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.