Bulk RNA-sequencing of mouse prostate tumors initiated by transplantation of engineered organoids.
RNA-seq (gene expression) · mouse · 18 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
- 18 samples: 10 × PtPM Tumor vs 8 × RPM TumorGroups 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 neuroendocrine transition in prostate cancer is dynamic and dependent on ASCL1Nature cancer · 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 GSE246251_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 PRJNA1032124 and SRA study SRP468430. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 2 replicated groups read from 18 sample titles; they account for 18 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.
- GSM7865619 PtPM Tumor - Rep 1 PtPM Tumor
- GSM7865620 PtPM Tumor - Rep 2 PtPM Tumor
- GSM7865621 PtPM Tumor - Rep 3 PtPM Tumor
- GSM7865622 PtPM Tumor - Rep 4 PtPM Tumor
- GSM7865623 PtPM Tumor - Rep 5 PtPM Tumor
- GSM7865624 PtPM Tumor - Rep 6 PtPM Tumor
- GSM7865625 PtPM Tumor - Rep 7 PtPM Tumor
- GSM7865626 PtPM Tumor - Rep 8 PtPM Tumor
- GSM7865627 PtPM Tumor - Rep 9 PtPM Tumor
- GSM7865628 PtPM Tumor - Rep 11 PtPM Tumor
- GSM7865629 RPM Tumor - Rep 1 RPM Tumor
- GSM7865630 RPM Tumor - Rep 2 RPM Tumor
- GSM7865631 RPM Tumor - Rep 4 RPM Tumor
- GSM7865632 RPM Tumor - Rep 5 RPM Tumor
- GSM7865633 RPM Tumor - Rep 6 RPM Tumor
- GSM7865634 RPM Tumor - Rep 7 RPM Tumor
- GSM7865635 RPM Tumor - Rep 8 RPM Tumor
- GSM7865636 RPM Tumor - Rep 9 RPM Tumor
- GSE246770 Profiling of murine tumors initiated by transplantation of engineered prostate organoids 27 samples shares transplantation, engineered, initiated, organoids, prostate
- 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 transplantation, rna-sequencing, 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 transplantation, rna-sequencing, organoids
- GSE218337 Genotype-phenotype relationships (VPA/CHIR99021 vs. control; p53 Null vs. WT) in bulk RNA-sequencing of small intestinal murine organoids [bulk RNA-seq] 17 samples shares rna-sequencing, organoids, bulk
- 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 rna-sequencing, organoids, bulk
- GSE328406 Targeting CIC::DUX4 sarcoma with Minnelide in a dual recombinase-initiated genetically engineered mouse model [dFLEx_BulkRNAseq] 10 samples shares engineered, initiated, bulk
- GSE272970 Bulk liver RNA-sequencing of mice co-exposed to simvastatin and 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) 60 samples shares rna-sequencing, bulk
- GSE285071 Bulk muscle RNA-sequencing of mice co-exposed to simvastatin and 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) 60 samples shares rna-sequencing, bulk
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.