GEO series
Single-cell RNA-sequencing of BCG naïve and recurrent non-muscle invasive bladder cancer reveals a CD6/ALCAM-mediated immune-suppressive pathway
GSE269877
Homo sapiens
Expression profiling by high throughput sequencing
38 samples
Submitted 2025/08/12
Platform GPL20795
Summary
Bacillus Calmette-Guérin (BCG) is the mainstay of treatment for intermediate- and high-risk non-muscle invasive bladder cancer (NMIBC), yet recurrence rates remain high. To improve the efficacy of BCG, a better understanding of the immune landscape underlying BCG resistance is critical. Here, we performed single-cell RNA-sequencing (scRNA-seq) and whole-exome sequencing on tumors from NMIBC patients before and after BCG treatment. Our analysis revealed a marked increase in CD6/ALCAM interactions between T cells and urothelial cells in BCG recurrent tumors. CD6-high T cells were enriched in recurrent tumors and exhibited downregulation of activation-related genes, indicative of functional impairment. These observations were supported by analysis of an independent BCG-treated NMIBC cohort, in which CD6/ALCAM signaling was correlated with shorter recurrence-free survival (p = 0.00059). Our findings reveal a previously unrecognized association between CD6/ALCAM signaling and BCG resistance in NMIBC patients and highlight this pathway as a potential therapeutic target to enhance response to BCG.
Published in
Juric I, Fink EE, Qiu H et al.
· NPJ precision oncology 2025
· PMID 41006678
· doi:10.1038/s41698-025-01093-3
This dataset
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Direct links to NCBI, no account and no request form: the whole study as GSE269877_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 38 samples. Raw sequencing reads are also available from ENA.
Also filed as BioProject PRJNA1039857. Searching any of these in the dataset finder brings you back here.
Study design
38 conditions, each sampled once — no replicated groups
Read from 38 sample titles: 38 distinct titles with little repetition. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM8329311 BC_1_scRNA
- GSM8329312 BC_10_scRNA
- GSM8329313 BC_11_scRNA
- GSM8329314 BC_12_scRNA
- GSM8329315 BC_13_scRNA
- GSM8329316 BC_14_scRNA
- GSM8329317 BC_15_scRNA
- GSM8329318 BC_16_scRNA
- GSM8329319 BC_17_scRNA
- GSM8329320 BC_18_scRNA
- GSM8329321 BC_19_scRNA
- GSM8329322 BC_2_scRNA
- GSM8329323 BC_20_scRNA
- GSM8329324 BC_21_scRNA
- GSM8329325 BC_22_scRNA
- GSM8329326 BC_23_scRNA
- GSM8329327 BC_24_scRNA
- GSM8329328 BC_25_scRNA
- GSM8329329 BC_26_scRNA
- GSM8329330 BC_27_scRNA
- GSM8329333 BC_3_scRNA
- GSM8329344 BC_4_scRNA
- GSM8329345 BC_5_scRNA
- GSM8329346 BC_6_scRNA
- GSM8329347 BC_7_scRNA
- GSM8329348 BC_8_scRNA
- GSM8329349 BC_9_scRNA
- GSM8329350 BN_1_scRNA
- GSM8329351 BN_10_scRNA
- GSM8329352 BN_2_scRNA
- GSM8329353 BN_3_scRNA
- GSM8329354 BN_4_scRNA
- GSM8329355 BN_5_scRNA
- GSM8329356 BN_6_scRNA
- GSM8329357 BN_7_scRNA
- GSM8329358 BN_8_scRNA
- GSM8329359 BN_9_scRNA
- GSM8329360 BO_17_scRNA
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