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Biology subjects

Perny, A.

Publications and source records attributed to Perny, A..

2 recordsLinked to original sources

Autonomous learning of pathologists' cancer grading rules

Deep learning reveals that tissue morphology contains rich pathophysiological information beyond human understanding. However, approaches to convert these spatially distributed signals into subcellular insights informing disease mechanisms are lacking. We introduce Delta-Marches, an interpretability-first approach that nominates distinguishing morphological features rather than explaining existing models' decisions. Delta-Marches simulates idealized morphological changes between classes by coupling latent-space traversals with generative AI. Comparing each image to its class-shifted counterpart allows feature extractors to infer the most affected aspects, reducing sample-to-sample variability and resolving transformations at subcellular resolution. Prototyped in renal carcinoma grading, Delta-Marches generates realistic grade transitions and pinpoints tumor-cell nuclear phenotypes as key determinants. It also reveals reduced vasculature with increasing grade, a known pattern absent from standard rubrics. Applied to dysplastic progression in colorectal tissue, it recovers glandular remodeling and goblet-cell loss, generalizing across tissue types and scales. These results show Delta-Marches parses complex image phenotypes and catalyzes hypothesis generation.

bioinformatics↗

Caveolin-1 regulates context-dependent signaling and survival in Ewing Sarcoma.

Plasticity is a hallmark function of cancer cells, yet the mechanisms that enable dynamic switching between survival states remain incompletely understood. Here, we identify Caveolin-1, a membrane-domain scaffolding protein, as a context-dependent regulator of survival signaling in Ewing sarcoma (EwS). Single-cell analyses reveal a distinct subpopulation of EwS cells marked by high CD99 and elevated Caveolin-1 expression. These CD99High cells exhibit unique morphology, transcriptional programs, and markedly enhanced survival both under chemotherapeutic challenge and in vivo. Importantly, CD99High and CD99Low states are reversible, providing EwS cells with a flexible route to survival-oriented plasticity. Mechanistically, we show that Caveolin-1 in CD99High cells orchestrates PI3K/AKT survival signaling by modulating the spatial organization of PI3K activity on the plasma membrane. We propose that the CD99High state establishes a Caveolin-1-driven signaling architecture that supports survival through mechanisms distinct from those used by CD99Low cells. These findings uncover a dynamic state transition in EwS cells and position Caveolin-1 as a key driver of context-specific survival signaling.

cancer biology↗