PMCID
PMC12710959

BCL-X Dependence is a Subtype Agnostic Actionable Feature of Difficult-to-Treat Kidney Cancers.

bioRxiv : the preprint server for biology
Authors
Abstract

The BCL-X anti-apoptotic protein is a clear cell Renal Cell Carcinoma (ccRCC) dependency; however, the mechanism of this dependence and its relevance in other aggressive kidney cancer contexts, including metastatic and/or rare RCC subtypes [e.g., Fumarate Hydratase (FH)-deficient and sarcomatoid RCCs], is unknown. Computational predictions, using a machine learning model trained on the human RCC TCGA dataset, and cell-based validations, confirmed BCL-X dependence in all RCC subtypes. Remarkably, cell state changes, 'anoikis' programs, inflammatory state, and metabolic perturbations (e.g., fumarate production in FH-deficient RCCs) independently conferred increased BCL-X dependence. Correlation studies revealed that increased AMPK isoform 2 () expression is a kidney-specific biomarker of BCL-X dependence. Indeed, pharmacological AMPK activation sensitized RCCs to BCL-X blockade. Finally, using functional studies, we developed a multivariate model that accurately predicted BCL-X dependence in RCC. Our studies offer biomarkers for patient stratification and credential BCL-X as a subtype agnostic vulnerability in difficult-to-treat RCCs.

Year of Publication
2025
Journal
bioRxiv : the preprint server for biology
Date Published
12/2025
ISSN
2692-8205
DOI
10.64898/2025.12.10.693422
PubMed ID
41415469
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