Intermediate Layers Encode Optimal Biological Representations in Single-Cell Foundation Models

Current single-cell foundation model benchmarks universally extract final layer embeddings, assuming these represent optimal feature spaces. We systematically evaluate layer-wise representations from scFoundation (100M parameters) and Tahoe-X1 (1.3B parameters) across trajectory inference and perturbation response prediction. Our analysis reveals that optimal layers are task-dependent (trajectory peaks at 60% depth, 31% above final layers) and context-dependent (perturbation optima shift 0-96% across T cell activation states). Notably, first-layer embeddings outperform all deeper layers in quiescent cells, challenging assumptions about hierarchical feature abstraction. These findings demonstrate that "where" to extract features matters as much as "what" the model learns, necessitating systematic layer evaluation tailored to biological task and cellular context rather than defaulting to final-layer embeddings.

A New Dataset for Monocular Depth Estimation Under Viewpoint Shifts

Monocular depth estimation is a critical task for autonomous driving and many other computer vision applications. While significant progress has been made in this field, the effects of viewpoint shifts on depth estimation models remain largely underexplored. This paper introduces a novel dataset and evaluation methodology to quantify the impact of different camera positions and orientations on monocular depth estimation performance. We propose a ground truth strategy based on homography estimation and object detection, eliminating the need for expensive lidar sensors. We collect a diverse dataset of road scenes from multiple viewpoints and use it to assess the robustness of a modern depth estimation model to geometric shifts. After assessing the validity of our strategy on a public dataset, we provide valuable insights into the limitations of current models and highlight the importance of considering viewpoint variations in real-world applications.