arXiv:2607. 22712v1 Announce Type: cross Abstract: Single-cell light microscopy images have become an important data source for characterizing cell phenotypes, but their complexity and heterogeneity pose challenges to high-throughput automated analysis.
The study evaluates multiple computational methods for detecting dead cells in fluorescence microscopy images, comparing heuristic thresholding, classification with numerical and image features, and anomaly detection techniques. Using a dataset of 258 images and 65,527 cells, the best performance was achieved by deep learning image classifiers (ResNet-18) and traditional numerical classifiers (XGBoost), outperforming manual heuristics and anomaly detection. The results highlight the difficulty of reliably identifying apoptotic cells despite advanced machine learning approaches.
arXiv:2606. 03435v1 Announce Type: new Abstract: Cell Painting combines multiplexed fluorescent staining, high-content imaging, and quantitative analysis to generate high-dimensional phenotypic readouts to support diverse downstream tasks such as mechanism-of-action (MoA) inference, toxicity prediction, and construction of drug-disease atlases.
arXiv:2602. 02124v2 Announce Type: replace-cross Abstract: Drug-induced toxicity is a leading cause of preclinical and early-clinical failure, making early detection critical.
arXiv:2607. 00385v1 Announce Type: cross Abstract: Automated malaria diagnosis from blood smear microscopy is a critical challenge in global health AI; in resource-limited settings, the scarcity of expert microscopists remains the primary bottleneck to timely and accurate diagnosis.
arXiv:2607. 00385v2 Announce Type: replace-cross Abstract: Automated malaria diagnosis from blood smear microscopy is a critical global health AI challenge; expert scarcity remains the primary diagnostic bottleneck.
CellTrack-Bench is a new benchmark designed to evaluate Vision‑Language Models (VLMs) on microscopic cell tracking tasks. It compiles 1,537 problems from 15 standard cell‑tracking datasets across four imaging modalities, totaling 9,041 cell‑linking decisions, and includes a hard subset that highlights shared failures among specialized trackers. The benchmark was used to assess 9 closed‑source and 13 open‑weight VLMs, compare them to specialized trackers, and analyze their failure modes, with all code and data available on GitHub.
arXiv:2607. 19426v1 Announce Type: cross Abstract: Single-cell datasets are increasingly costly to store, audit, and reuse for model training.
arXiv:2609.09863v1 Announce Type: new Abstract: Choosing a deep learning architecture for label-free single-cell classification remains an open question, with microscopy benchmarks reporting conflict...
arXiv:2603. 13377v2 Announce Type: replace-cross Abstract: Representation learning has driven major advances in natural image analysis by enabling models to acquire high-level semantic features.
arXiv:2607. 19426v2 Announce Type: replace-cross Abstract: Large single-cell datasets are expensive to store, curate, and repeatedly reuse for model training.
The paper presents a 3D foundation model for light sheet fluorescence microscopy (LSM) that is pretrained on a large curated set of 3D images from various organisms, stains, and imaging protocols. By jointly optimizing for masked reconstruction and image‑text alignment, the model learns transferable volumetric representations that dramatically reduce the need for annotated data. The pretrained backbone enables efficient few‑shot adaptation to downstream tasks such as segmentation, classification, and deblurring, consistently outperforming baselines according to standard metrics and expert evaluation.