TGF-β Signaling Pathway and Cell-Cell Interactions in the Tumor Microenvironment Drive Bladder Cancer Progression after BCG Instillation Treatment: Insights from longitudinal Single-Nucleus RNA-Seq
Single-nucleus RNA-seq · human · 14 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue).
- Organism
- Homo sapiens (human)
- Topic
- Bladder cancerThis series is part of our curated briefing on it.
- Samples
- 14 samples: 14 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
- TGF-β signaling and tumor microenvironment dynamics in bladder cancer progression post-BCG therapy: a longitudinal single-nucleus RNA-seq studyBMC cancer · 2025
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 GSE270296_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 PRJNA1126154 and SRA study SRP514981. 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 14 sample titles: 14 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.
- GSM8339250 NP,P-1, snRNA
- GSM8339251 P,P-2, snRNA
- GSM8339252 P,P-2(BCG), snRNA
- GSM8339253 P,P-2(Progression), snRNA
- GSM8339254 NP,P-3, snRNA
- GSM8339255 NP,P-4, snRNA
- GSM8339256 NP,P-5, snRNA
- GSM8339257 NP,P-6, snRNA
- GSM8339258 CF,P-6(CF), snRNA
- GSM8339259 NP,P-7, snRNA
- GSM8339260 P,P-8, snRNA
- GSM8339261 P,P-8(Progression), snRNA
- GSM8339262 P,P-9, snRNA
- GSM8339263 P,P-9(Progression), snRNA
- GSE181389 Transcriptome profiling of HOXA13 and HOXB13 expression knockdown in bladder cancer cell lines. 59 samples same disease briefing
- GSE193755 Human bladder cancer cell line high throughput sequencing - genes regulated by hMSH2 12 samples same disease briefing
- GSE214886 Downregulation of CBX7 induced by EZH2 upregulates FGFR3 expression to reduce sensitivity to cisplatin in bladder cancer 12 samples same disease briefing
- GSE211924 UCHL5 promotes Tumorigenesis of Bladder Cancer by Activating AKT/mTOR signaling pathway and targeting c-myc, SLC25A19, and ICAM5. 9 samples same disease briefing
- GSE172359 Combination of urine exosomal mRNAs and lncRNAs as novel diagnostic biomarkers for bladder cancer 6 samples same disease briefing
- GSE182310 Transcriptome sequence of Human bladder cancer cell line 6 samples same disease briefing
- GSE193753 Human bladder cancer cell line high throughput sequencing - genes regulated by hMSH2 - CDDP therapy 6 samples same disease briefing
- GSE193754 Human bladder cancer cell line high throughput sequencing - genes regulated by hMSH2 - untreated 6 samples same disease briefing
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.