Recent selected publications
Lion Ben Nedava*, Gad Miller*, Nitsan Elmalam, Matheus P. Viana, Jianxu Chen, Nathalie Gaudreault, Susanne M. Rafelski, Assaf Zaritsky. Trustworthy in silico labeling via semantic visual interpretability of image-to-image translation. bioRxiv. DOI: https://doi.org/10.1101/2025.05.05.651422
Reut Mealem*, Thomas. A. Phillips*, Leor Ariel Rose*, Stefania Marcotti, Maddy Parsons, Zaritsky A. Spatially distinct chromatin compaction states predict neoadjuvant chemotherapy resistance in Triple Negative Breast Cancer. bioRxiv. DOI: https://doi.org/10.64898/2025.12.04.692131
Zamir A, Amitay Y, Tamir Y, Keren L, Zaritsky A. Context-dependent spatial multicellular network motifs for single-cell spatial biology. bioRxiv. DOI: https://doi.org/10.1101/2025.05.05.651422
Tamir Y, Bussi Y, Owczarek C, Luque L, Torrisi G, Rose LA, Kliper-Gross O, Schumacher L, Parsons M, Keren L, Zaritsky A. Data-modeling the interplay between single cell shape, single cell protein expression, and tissue state. Cell Reports Methods. DOI: 10.1016/j.crmeth.2026.101463
Shpigler A*, Kolet N*, Golan S, Weisbart E, Zaritsky A. Anomaly detection for high-content image-based phenotypic cell profiling. bioRxiv. DOI: https://doi.org/10.1101/2024.06.01.595856
Elmalam N and Zaritsky A. Cell-context dependent in silico organelle localization in label-free microscopy images. Nature Methods. DOI: https://doi.org/10.1038/s41592-025-02960-4
Hollander S, Guo Y, Wolfenson H§, Zaritsky A. Spatiotemporal analysis of F-actin polymerization with micropillar arrays reveals synchronization between adhesion sites. Molecular Biology of the Cell (MBoC) 2024. DOI: https://doi.org/10.1091/mbc.E24-06-0276
Rotem O, Schwartz T, Maor R, Tauber Y, Tsarfati Shapiro M, Meseguer M, Gilboa D, Seidman D.S., Zaritsky A. Visual interpretability of image-based classification models by generative latent space disentanglement applied to in vitro fertilization. Nature Communications 2024. DOI: https://doi.org/10.1038/s41467-024-51136-9
Rotem O & Zaritsky A. Visual interpretability of bioimaging deep learning models. Nature Methods 2024. DOI: https://doi.org/10.1038/s41592-024-02322-6
Elmalam N*, Ben Nedava L*, Zaritsky A. In silico labeling in cell biology: potential and limitations. Current Opinion in Cell Biology 2024. DOI: https://doi.org/10.1016/j.ceb.2024.102378.
Ben David S*, Ho K.Y.L.*, Tanentzapf G§, Zaritsky A§. Formation of recurring transient Ca2+-based intercellular communities during Drosophila hematopoiesis. Proceedings of the National Academy of Sciences 2024. DOI: https://doi.org/10.1073/pnas.2318155121
Shakarchy A*, Zarfati G*, Hazak A, Mealem R, Huk K, Avinoam O§, Zaritsky A§. Machine learning inference of continuous single-cell state transitions during myoblast differentiation and fusion. Molecular Systems Biology 2024. DOI: https://doi.org/10.1038/s44320-024-00010-3
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