Integrated single-cell analysis defines the epigenetic basis of castration-resistant prostate luminal cells (scRNA-seq)
Single-cell RNA-seq · mouse · 18 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Mus musculus (mouse)
- Samples
- 18 samples: 18 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
- Integrated single-cell analysis defines the epigenetic basis of castration-resistant prostate luminal cellsCell stem cell · 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 GSE227108_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA943237 and SRA study SRP426644. 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 18 sample titles: 18 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.
- GSM7091755 AP1-Intact, replicate 1, scRNA
- GSM7091756 AP1-Intact, replicate 2, scRNA
- GSM7091757 AP1-Castrated, replicate 1, scRNA
- GSM7091758 AP1-Castrated, replicate 2, scRNA
- GSM7091759 DLVP-Intact, replicate 1, scRNA
- GSM7091760 DLVP-Intact, replicate 2, scRNA
- GSM7091761 DLVP-Intact, replicate 3, scRNA
- GSM7091762 DLVP-Intact, replicate 4, scRNA
- GSM7091763 DLVP-Castrated, replicate 1, scRNA
- GSM7091764 DLVP-Castrated, replicate 2, scRNA
- GSM7091765 DLVP-Castrated, replicate 3, scRNA
- GSM7091766 DLVP-Castrated, replicate 4, scRNA
- GSM7091767 AP2-Intact, replicate 1, scRNA
- GSM7091768 AP2-Intact, replicate 2, scRNA
- GSM7091769 AP2-Castrated, replicate 1, scRNA
- GSM7091770 AP2-Castrated, replicate 2, scRNA
- GSM7091771 AP2-Regenerated, replicate 1, scRNA
- GSM7091772 AP2-Regenerated, replicate 2, scRNA
- GSE300288 Single-cell and spatial transcriptomics analysis of tobacco-associated lung adenocarcinoma development, and in response to targeting inflammation alone or in combination with immune checkpoint blockade in precancerous phase [scRNA-seq] 31 samples shares single-cell, scrna-seq
- GSE313761 Single-cell screens identify ADAM12 as a fibroblast checkpoint impeding anti-tumor immunity - scRNA-seq of Adam12CKO Mouse Model CD45- cells 11 samples shares single-cell, scrna-seq
- GSE220675 Kidney Single-Cell Atlas Reveals Macrophage Heterogeneity in Progression and Regression of Cisplatin Induced AKI [scRNA-seq] 11 samples shares single-cell, scrna-seq
- GSE329635 Single-cell RNA sequencing of small intestinal organoid self-organization [scRNA-Seq] 10 samples shares single-cell, scrna-seq
- GSE304674 scHiCAR: a tri-modal single-cell genomics technology for integrated transcriptome, epigenome, and 3D genome analysis in complex tissues [mouse_skeletal_muscle_scHiCAR] 50 samples shares single-cell, integrated
- GSE296466 PU.1 is a mediator of the reactive stroma response associated with castration-resistant prostate cancer 46 samples shares castration-resistant, prostate
- GSE333887 Matched single-cell chromatin, transcriptome, and surface marker profiling captures in vivo epigenomic reprogramming during basal-to-luminal transition in the mammary gland [transplantations_OneCell_multiome] 14 samples shares single-cell, luminal
- GSE283906 RXR-Mediated Remodeling of Transcriptional and Chromatin Landscapes in APP Mouse Brain: Insights from Integrated Single-Cell RNA and ATAC Profiling 10 samples shares single-cell, integrated
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.