RNA-Seq analysis of Trim28-deleted NPp53 mouse prostate tissue
RNA-seq (gene expression) · mouse · 19 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
- 19 samples: 5 × NPp53 homonally intact biol vs 5 × NPp53T homonally intact biol vs 5 × NPp53 castrated biol vs 3 × NPp53T castrated biolGroups 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
- Expression of endogenous retroviral elements is associated with extracellular matrix remodeling in prostate cancerMobile DNA · 2026
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 GSE298402_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 PRJNA1269089 and SRA study SRP588338. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 4 replicated groups read from 19 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.
- GSM9013597 NPp53 homonally intact biol rep 1 NPp53 homonally intact …
- GSM9013598 NPp53 homonally intact biol rep 2 NPp53 homonally intact …
- GSM9013599 NPp53 homonally intact biol rep 3 NPp53 homonally intact …
- GSM9013600 NPp53 homonally intact biol rep 4 NPp53 homonally intact …
- GSM9013601 NPp53 homonally intact biol rep 5 NPp53 homonally intact …
- GSM9013602 NPp53T homonally intact biol rep 1 NPp53T homonally intact…
- GSM9013603 NPp53T homonally intact biol rep 2 NPp53T homonally intact…
- GSM9013604 NPp53T homonally intact biol rep 3 NPp53T homonally intact…
- GSM9013605 NPp53T homonally intact biol rep 4 NPp53T homonally intact…
- GSM9013606 NPp53T homonally intact biol rep 5 NPp53T homonally intact…
- GSM9013607 NPp53 castrated biol rep 1 NPp53 castrated biol
- GSM9013608 NPp53 castrated biol rep 2 NPp53 castrated biol
- GSM9013609 NPp53 castrated biol rep 3 NPp53 castrated biol
- GSM9013610 NPp53 castrated biol rep 4 NPp53 castrated biol
- GSM9013611 NPp53 castrated biol rep 5 NPp53 castrated biol
- GSM9013612 NPp53T castrated biol rep 1 NPp53T castrated biol
- GSM9013613 NPp53Tcastrated biol rep 2
- GSM9013614 NPp53T castrated biol rep 3 NPp53T castrated biol
- GSM9013615 NPp53T castrated biol rep 4 NPp53T castrated biol
- GSE227108 Integrated single-cell analysis defines the epigenetic basis of castration-resistant prostate luminal cells (scRNA-seq) 18 samples shares prostate, rna-seq
- GSE326100 scRNA-seq of mouse cochlea organoid cells 768 samples shares rna-seq
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares rna-seq
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares rna-seq
- GSE326452 Bulk RNA-seq of mouse brain following closed head injury: role of IL-1R1 signaling 200 samples shares rna-seq
- GSE226609 Mouse lung tissue RNA-Seq from C57Bl6 wild type and ALOX15 KO mice with and without house dust mite (HDM) exposure. 20 samples shares rna-seq
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares rna-seq
- GSE306230 RNA-seq of mouse lung tissue after irradiation 12 samples shares 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.