Genetic Alterations in the Molecular Subtypes of Bladder Cancer: Illustration in the Cancer Genome Atlas Dataset

European Urology, Journal Year: 2017, Volume and Issue: 72(3), P. 354 - 365

Published: March 30, 2017

Language: Английский

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Bladder cancer

Nature Reviews Disease Primers, Journal Year: 2023, Volume and Issue: 9(1)

Published: Oct. 26, 2023

Language: Английский

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Liquid Biopsy Analysis of FGFR3 and PIK3CA Hotspot Mutations for Disease Surveillance in Bladder Cancer

European Urology, Journal Year: 2017, Volume and Issue: 71(6), P. 961 - 969

Published: Jan. 7, 2017

Language: Английский

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Genomic heterogeneity in bladder cancer: challenges and possible solutions to improve outcomes

Nature Reviews Urology, Journal Year: 2020, Volume and Issue: 17(5), P. 259 - 270

Published: March 31, 2020

Language: Английский

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Transcriptome-wide profiles of circular RNA and RNA-binding protein interactions reveal effects on circular RNA biogenesis and cancer pathway expression

Genome Medicine, Journal Year: 2020, Volume and Issue: 12(1)

Published: Dec. 1, 2020

Circular RNAs (circRNAs) are stable, often highly expressed RNA transcripts with potential to modulate other regulatory RNAs. A few circRNAs have been shown bind RNA-binding proteins (RBPs); however, little is known about the prevalence and distribution of these interactions in different biological contexts.We conduct an extensive screen circRNA-RBP ENCODE cell lines HepG2 K562. We profile deep-sequenced total samples analyze using a large set eCLIP data binding sites 150 RBPs. validate for select RBPs by performing immunoprecipitation functionally characterize our most interesting candidates conducting knockdown studies followed RNA-Seq.We generate comprehensive catalog K562 cells. show that KHSRP enriched flanking introns depletion affects circRNA biogenesis. identify covered RBP experimentally individual interactions. circCDYL, clinical functional implications bladder cancer, almost completely GRWD1 cells, circCDYL counteracts effect depletion. Furthermore, we confirm between cancer cells demonstrate hallmarks perturbs expression key genes, e.g., TP53. Finally, elevated levels associated overall survival patients.Our study demonstrates transcriptome-wide cell-type-specific could play important roles tumorigenesis.

Language: Английский

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An N-Cadherin 2 expressing epithelial cell subpopulation predicts response to surgery, chemotherapy and immunotherapy in bladder cancer

Nature Communications, Journal Year: 2021, Volume and Issue: 12(1)

Published: Aug. 12, 2021

Abstract Neoadjuvant chemotherapy (NAC) prior to surgery and immune checkpoint therapy (ICT) have revolutionized bladder cancer management. However, stratification of patients that would benefit most from these modalities remains a major clinical challenge. Here, we combine single nuclei RNA sequencing with spatial transcriptomics single-cell resolution proteomic analysis human identify an epithelial subpopulation therapeutic response prediction ability. These cells express Cadherin 12 ( CDH12, N-Cadherin 2 ), catenins, other markers. CDH12-enriched tumors define poor outcome following or without NAC. In contrast, exhibit superior ICT. all settings, patient by tumor CDH12 enrichment offers better than currently established subtypes. Molecularly, the population resembles undifferentiated state inherently aggressive biology including chemoresistance, likely mediated through progenitor-like gene expression fibroblast activation. PD-L1 PD-L2 co-localize exhausted T-cells, possibly CD49a ITGA1 providing one explanation for ICT efficacy in tumors. Altogether, this study describes cell intriguing diametric therapeutics. Importantly, it also provides compelling framework designing biomarker-guided trials.

Language: Английский

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Molecular classification and diagnostics of upper urinary tract urothelial carcinoma

Cancer Cell, Journal Year: 2021, Volume and Issue: 39(6), P. 793 - 809.e8

Published: June 1, 2021

Language: Английский

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Y chromosome loss in cancer drives growth by evasion of adaptive immunity

Nature, Journal Year: 2023, Volume and Issue: 619(7970), P. 624 - 631

Published: June 21, 2023

Language: Английский

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Genomic and transcriptomic analysis of checkpoint blockade response in advanced non-small cell lung cancer

Nature Genetics, Journal Year: 2023, Volume and Issue: 55(5), P. 807 - 819

Published: April 6, 2023

Abstract Anti-PD-1/PD-L1 agents have transformed the treatment landscape of advanced non-small cell lung cancer (NSCLC). To expand our understanding molecular features underlying response to checkpoint inhibitors in NSCLC, we describe here first joint analysis Stand Up Cancer-Mark Foundation cohort, a resource whole exome and/or RNA sequencing from 393 patients with NSCLC treated anti-PD-(L)1 therapy, along matched clinical annotation. We identify number associations between and outcome, including (1) favorable (for example, ATM altered) unfavorable TERT amplified) genomic subgroups, (2) prominent association expression inducible components immunoproteasome (3) dedifferentiated tumor-intrinsic subtype enhanced blockade. Taken together, results this cohort demonstrate complexity biological determinants immunotherapy outcomes reinforce discovery potential integrative within large, well-curated, cancer-specific cohorts.

Language: Английский

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Molecular profile of bladder cancer progression to clinically aggressive subtypes

Nature Reviews Urology, Journal Year: 2024, Volume and Issue: 21(7), P. 391 - 405

Published: Feb. 6, 2024

Language: Английский

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