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Nov 11

Artificial Intelligence Virtual Cells: From Measurements to Decisions across Modality, Scale, Dynamics, and Evaluation

Artificial Intelligence Virtual Cells (AIVCs) aim to learn executable, decision-relevant models of cell state from multimodal, multiscale measurements. Recent studies have introduced single-cell and spatial foundation models, improved cross-modality alignment, scaled perturbation atlases, and explored pathway-level readouts. Nevertheless, although held-out validation is standard practice, evaluations remain predominantly within single datasets and settings; evidence indicates that transport across laboratories and platforms is often limited, that some data splits are vulnerable to leakage and coverage bias, and that dose, time and combination effects are not yet systematically handled. Cross-scale coupling also remains constrained, as anchors linking molecular, cellular and tissue levels are sparse, and alignment to scientific or clinical readouts varies across studies. We propose a model-agnostic Cell-State Latent (CSL) perspective that organizes learning via an operator grammar: measurement, lift/project for cross-scale coupling, and intervention for dosing and scheduling. This view motivates a decision-aligned evaluation blueprint across modality, scale, context and intervention, and emphasizes function-space readouts such as pathway activity, spatial neighborhoods and clinically relevant endpoints. We recommend operator-aware data design, leakage-resistant partitions, and transparent calibration and reporting to enable reproducible, like-for-like comparisons.

  • 2 authors
·
Dec 1, 2025

Rethinking the shape convention of an MLP

Multi-layer perceptrons (MLPs) conventionally follow a narrow-wide-narrow design where skip connections operate at the input/output dimensions while processing occurs in expanded hidden spaces. We challenge this convention by proposing wide-narrow-wide (Hourglass) MLP blocks where skip connections operate at expanded dimensions while residual computation flows through narrow bottlenecks. This inversion leverages higher-dimensional spaces for incremental refinement while maintaining computational efficiency through parameter-matched designs. Implementing Hourglass MLPs requires an initial projection to lift input signals to expanded dimensions. We propose that this projection can remain fixed at random initialization throughout training, enabling efficient training and inference implementations. We evaluate both architectures on generative tasks over popular image datasets, characterizing performance-parameter Pareto frontiers through systematic architectural search. Results show that Hourglass architectures consistently achieve superior Pareto frontiers compared to conventional designs. As parameter budgets increase, optimal Hourglass configurations favor deeper networks with wider skip connections and narrower bottlenecks-a scaling pattern distinct from conventional MLPs. Our findings suggest reconsidering skip connection placement in modern architectures, with potential applications extending to Transformers and other residual networks.

MediaTek-Research MediaTek Research
·
Oct 2, 2025 2

Lift, Splat, Shoot: Encoding Images From Arbitrary Camera Rigs by Implicitly Unprojecting to 3D

The goal of perception for autonomous vehicles is to extract semantic representations from multiple sensors and fuse these representations into a single "bird's-eye-view" coordinate frame for consumption by motion planning. We propose a new end-to-end architecture that directly extracts a bird's-eye-view representation of a scene given image data from an arbitrary number of cameras. The core idea behind our approach is to "lift" each image individually into a frustum of features for each camera, then "splat" all frustums into a rasterized bird's-eye-view grid. By training on the entire camera rig, we provide evidence that our model is able to learn not only how to represent images but how to fuse predictions from all cameras into a single cohesive representation of the scene while being robust to calibration error. On standard bird's-eye-view tasks such as object segmentation and map segmentation, our model outperforms all baselines and prior work. In pursuit of the goal of learning dense representations for motion planning, we show that the representations inferred by our model enable interpretable end-to-end motion planning by "shooting" template trajectories into a bird's-eye-view cost map output by our network. We benchmark our approach against models that use oracle depth from lidar. Project page with code: https://nv-tlabs.github.io/lift-splat-shoot .

  • 2 authors
·
Aug 13, 2020

The Lift Spectrum: How Measurement-to-Space Adaptivity Shapes Robustness in Image-Free Single-Pixel Sensing

Single-pixel sensing encodes a scene as a short sequence of coded measurements, and image-free methods infer the task directly from that sequence. Removing reconstruction does not remove the difficulty: it relocates it to the lift, the map from 1D measurements to a 2D representation, which prior work treats as a trivial reshape. We recast the lift as the central design axis of image-free sensing and order methods by how strongly it adapts to its input: a fixed-physics inverse (reconstruct-then-segment), a learned static projection, or a content-adaptive retrieval; position on this lift spectrum predicts behavior as acquisition degrades. The spatiotemporal soft-fusion (STSF) network pairs a probe-selected recurrent encoder with a cross-attention lift chosen by a parameter-matched ablation, ahead of its U-Net++ decoder, and trains under task-prioritized loss scheduling (TPLS), a scheduled reconstruction prior. In simulation, STSF+TPLS surpasses the prior image-free baseline on three datasets at 3.13% sampling (+3.2 to +9.9 pp foreground mIoU) and plateaus down to 0.39%. The strongest clean-trained reconstruct-then-segment baseline wins the noiseless limit, but under calibrated measurement noise image-free inference overtakes it, for a measured reason: the reconstruction pipeline amplifies the identical measurement noise before its segmenter reads it. Each region fails in its own signature: collapse, imprinting, or coarsening. STSF+TPLS transfers without fine-tuning to a real single-pixel bench as a proof of concept, at about 14 ms per mask. Charting the lift turns a scattered design space into a map of which lift to deploy at each operating point. Code and pretrained weights: https://github.com/Hanyuyuan6/STSF-TPLS

  • 11 authors
·
Jul 23

From Per-Image Low-Rank to Encoding Mismatch: Rethinking Feature Distillation in Vision Transformers

Feature-map knowledge distillation (KD) transfers internal representations well between comparably sized Vision Transformers (ViTs), but it often fails in compression. We revisit this failure and uncover a paradox. Sample-wise SVD shows that each image is highly compressible, which seems to suggest that a narrow student with a linear projector should match the teacher "in principle". However, a dataset-level view contradicts this intuition: PCA shows that the teacher is a union of low-rank subspaces with significant subspace rotation across inputs. We further introduce token-level Spectral Energy Patterns (SEP) and find an architecture-invariant encoding law: tokens spread energy broadly across channel modes even when they live in low-rank subspace, creating a bandwidth mismatch. We refer to this combined phenomenon as an encoding mismatch. We propose two minimal remedies, Lift or WideLast: (i) Lift retains a lightweight lifting projector at inference to provide wider channel, or (ii) WideLast widens only the student's last block, enabling an input-dependent expansion. On ImageNet-1K, these fixes revive feature KD for ViT compression, improving DeiT-Tiny distilled from CaiT-S24 from 74.86% to 77.53%/78.23% top-1 accuracy, and they also strengthen students trained without distillation. Our analyses clarify when and why feature-map KD fails and then how to fix it. Code and raw data are provided in https://github.com/thy960112/From-Per-Image-Low-Rank-to-Encoding-Mismatch.

  • 3 authors
·
May 25

A Rust-to-Lean Verification Pipeline with AI Provers: An Experience Report

We describe a verification pipeline that takes production Rust cryptographic code and produces machine-checked correctness proofs in Lean 4. The pipeline combines three components: symbolic extraction tools (Charon and Aeneas, or Hax) that lift Rust into Lean 4; formal cryptographic specification libraries (ArkLib and CompPoly, from the Verified zkEVM project) that provide the mathematical targets; and AI provers (Aristotle from Harmonic AI and Aleph from Logical Intelligence) that close the resulting proof obligations. Every proof is checked by the Lean kernel, so AI output cannot compromise soundness. Within the scope of the Ethereum Foundation's zkEVM Verification Project, we applied the pipeline to cryptographic primitives in Plonky3 (FRI folding, Mersenne31 and KoalaBear field arithmetic, Horner polynomial evaluation) and RISC Zero (Merkle inclusion verification). In addition, Aleph authored proofs of two bounds-style theorems in Plonky3's compute_log_arity_for_round that previously stood as sorry. The paper describes the architecture, walks through a running example based on Aleph's two proofs, reports which classes of proof obligations AI closed and which required manual work, and discusses the engineering gaps we encountered: Lean 4 toolchain drift across tools and specific Aeneas/Hax extraction limits. We also document concrete missing lemmas, tactic gaps, and code-generation friction points discovered during proof development. We hope this contribution lowers the barrier to adoption of formal verification and facilitates more effective use of AI in this pipeline. The result is a working pipeline for formal verification of Rust, with kernel-checked proofs and reproducible artefacts.

  • 3 authors
·
May 27