Profiling of murine tumors initiated by transplantation of engineered prostate organoids
RNA-seq (gene expression) · mouse · 27 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
- 27 samples: 6 conditions, mostly in duplicateGroups 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 GSE246770_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 PRJNA1034582 and SRA study SRP468430. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 26 samples.
How we read this: 6 replicated groups read from 27 sample titles; they account for 26 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
- GSM7876407 RPM_2_&_3 weeks tumor_rep1 RPM_2_&_3 weeks tumor
- GSM7876408 RPM_2_&_3 weeks tumor_rep2 RPM_2_&_3 weeks tumor
- GSM7876409 RPM_4_&_6 weeks tumor_rep1 RPM_4_&_6 weeks tumor
- GSM7876410 RPM_4_&_6 weeks tumor_rep2 RPM_4_&_6 weeks tumor
- GSM7876411 RPM_10 week tumors_rep1 RPM_10 week tumors
- GSM7876412 RPM_10 week tumors_rep2 RPM_10 week tumors
- GSM7876413 RPM_10 week lymph node met_rep1 RPM_10 week lymph node …
- GSM7876414 RPM_10 week lymph node met_rep2 RPM_10 week lymph node …
- GSM7876515 RPM_10 week tumor_rep1
- GSE246251 Bulk RNA-sequencing of mouse prostate tumors initiated by transplantation of engineered organoids. 18 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, 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, organoids
- GSE328406 Targeting CIC::DUX4 sarcoma with Minnelide in a dual recombinase-initiated genetically engineered mouse model [dFLEx_BulkRNAseq] 10 samples shares engineered, initiated
- GSE297387 Nanoengineered STING Mucosal Adjuvant Activates Coordinated Mucosal-Systemic Immunity for Durable Cross-Protective Defense 24 samples shares engineered
- GSE206598 Transcriptome analysis of tumors from genetically engineered mouse models carrying Cbfb and/or Pik3ca mutations 18 samples shares engineered
- GSE251931 Maintenance of tolerance after lung transplantation is dependent on the preservation of allograft tissue-resident Foxp3+ T cells 15 samples shares transplantation
- GSE289168 An engineered viral protein activates STAT5 to prevent T cell suppression 14 samples shares engineered
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.