Understanding cellular responses to chemical interventions is critical to the discovery of effective therapeutics. Because individual biological techniques often measure only one axis of cellular response at a time, high-quality multimodal datasets are needed to unlock a holistic understanding of how cells respond to treatments and to advance computational methods that integrate modalities. However, many techniques destroy cells and thus preclude paired measurements, and attempts to match disparate unimodal datasets are often confounded by data being generated in incompatible experimental settings. Here we introduce scGeneScope, a multimodal single-cell RNA sequencing (scRNA-seq) and Cell Painting microscopy image dataset conditionally paired by chemical treatment, designed to facilitate the development and benchmarking of unimodal, multimodal, and multiple profile machine learning methods for cellular profiling.

How precisely does circuit wiring specify function? This fundamental question is particularly relevant for modern neuroscience, as large-scale electron microscopy now enables the reconstruction of neural circuits at single-synapse resolution across many organisms. To interpret circuit function from such datasets, we must understand the extent to which the measured structure constrains dynamics. We investigate this question in the Drosophila head direction (HD) circuit, which maintains an internal heading estimate through attractor dynamics that integrate self-motion velocity cues. This circuit serves as a sensitive assay for functional specification: continuous attractor networks are theoretically known to require finely tuned wiring symmetries, whereas connectomes omit key cellular parameters such as synaptic gains, neuronal thresholds, and time constants, and reveal that biological wiring can be heterogeneous. We introduce a method that combines selfsupervised and unsupervised learning objectives to estimate unknown parameters at the level of cell types, rather than individual neurons and synapses. Starting from the raw connectivity matrix, our approach recovers a network that exhibits continuous attractor dynamics and accurately integrates a range of velocity inputs, despite minimal parameter tuning on a connectome that notably departs from the symmetric regularity of an idealized ring attractor. We characterize how deviations from the original connectome shape the space of viable solutions. We also perform in-silico ablation experiments to probe the distinct functional roles of specific cell types in the circuit, demonstrating how connectome-derived structure, when augmented with minimal, biologically grounded tuning, can replicate known physiology and elucidate circuit function.

Designing optimal Bayes filters for nonlinear non-Gaussian systems is a challenging task. The main difficulties are: 1) representing complex beliefs, 2) handling non-Gaussian noise, and 3) marginalizing past states. To address these challenges, we focus on polynomial systems and propose the Max Entropy Moment Kalman Filter (MEM-KF). To address 1), we represent arbitrary beliefs by a MomentConstrained Max-Entropy Distribution (MED). The MED can asymptotically approximate almost any distribution given an increasing number of moment constraints. To address 2), we model the noise in the process and observation model as MED. To address 3), we propagate the moments through the process model and recover the distribution as MED, thus avoiding symbolic integration, which is generally intractable. All the steps in MEM-KF, including the extraction of a point estimate, can be solved via convex optimization.

Testing hypotheses on how representational changes occur in biological systems is challenging, but large language models (LLMs) offer a scalable alternative. Building on LLMs' in-context learning, we adapt a cognitive neuroscience associative learning paradigm and investigate how representations evolve across six models. Our initial findings reveal a non-monotonic pattern consistent with the Non-Monotonic Plasticity Hypothesis, with moderately similar items differentiating after learning. Leveraging the controllability of LLMs, we further show that this differentiation is modulated by the overlap of associated items with the broader vocabulary-a factor we term vocabulary interference, capturing how new associations compete with prior knowledge. We find that higher vocabulary interference amplifies differentiation, suggesting that representational change is influenced by both item similarity and global competition.

Sparse inertial measurement units (IMUs) provide a portable, low-cost solution for human motion tracking but struggle with error accumulation from drift and sensor noise when estimating joint position through time-based linear acceleration integration (i.e., indirect measurement). To address this, we propose ToF-IP, a novel 3D full-body pose estimation system that integrates Time-of-Flight (ToF) sensors with sparse IMUs. The distinct advantage of our approach is that ToF sensors provide direct distance measurements, effectively mitigating error accumulation without relying on indirect time-based integration. From a hardware perspective, we maintain the portability of existing solutions by attaching ToF sensors to selected IMUs with a negligible volume increase of just 3%. On the software side, we introduce two novel techniques to enhance multi-sensor integration: (i) a NodeCentric Data Integration strategy that leverages a Transformer encoder to explicitly model both intra-node and inter-node data integration by treating each sensing node as a token; and (ii) a Dynamic Spatial Positional Encoding scheme that encodes the continuously changing spatial positions of wearable nodes as motion-conditioned functions, enabling the model to better capture human body dynamics in the embedding space. Additionally, we contribute a 208-minute human motion dataset from 10 participants, including synchronized IMU-ToF measurements and groundtruth from optical tracking. Extensive experiments demonstrate that our method outperforms state-of-the-art approaches such as PNP, achieving superior accuracy in tracking complex and slow motions like Tai Chi, which remains challenging for inertial-only methods.

Contextual Markov Decision Processes (cMDP) model this challenge, but existing methods often require explicit context variables (e.g., friction, gravity), limiting their use when contexts are latent or hard to measure. We introduce Dynamics-Aligned Latent Imagination (DALI), a framework integrated within the Dreamer architecture that infers latent context representations from agent-environment interactions. By training a self-supervised encoder to predict forward dynamics, DALI generates actionable representations conditioning the world model and policy, bridging perception and control. We theoretically prove this encoder is essential for efficient context inference and robust generalization. DALI's latent space enables counterfactual consistency: Perturbing a gravity-encoding dimension alters imagined rollouts in physically plausible ways. On challenging cMDP benchmarks, DALI achieves significant gains over contextunaware baselines, often surpassing context-aware baselines in extrapolation tasks, enabling zero-shot generalization to unseen contextual variations.

Audio-visual understanding is a rapidly evolving field that seeks to integrate and interpret information from both auditory and visual modalities. Despite recent advances in multi-modal learning, existing benchmarks often suffer from strong visual bias - when answers can be inferred from visual data alone - and provide only aggregate scores that conflate multiple sources of error. This makes it difficult to determine whether models struggle with visual understanding, audio interpretation, or audio-visual alignment. In this work, we introduce DAVE (Diagnostic Audio Visual Evaluation), a novel benchmark dataset designed to systematically evaluate audio-visual models across controlled settings. DAVE alleviates existing limitations by (i) ensuring both modalities are necessary to answer correctly and (ii) decoupling evaluation into atomic subcategories. Our detailed analysis of state-of-the-art models reveals specific failure modes and provides targeted insights for improvement. By offering this standardized diagnostic framework, we aim to facilitate more robust development of audio-visual models.

Backward stochastic differential equation (BSDE)-based deep learning methods provide an alternative to Physics-Informed Neural Networks (PINNs) for solving high-dimensional partial differential equations (PDEs), offering potential algorithmic advantages in settings such as stochastic optimal control, where the PDEs of interest are tied to an underlying dynamical system. However, standard BSDEbased solvers have empirically been shown to underperform relative to PINNs in the literature. In this paper, we identify the root cause of this performance gap as a discretization bias introduced by the standard Euler-Maruyama (EM) integration scheme applied to one-step self-consistency BSDE losses, which shifts the optimization landscape off target. We find that this bias cannot be satisfactorily addressed through finer step-sizes or multi-step self-consistency losses. To properly handle this issue, we propose a Stratonovich-based BSDE formulation, which we implement with stochastic Heun integration. We show that our proposed approach completely eliminates the bias issues faced by EM integration. Furthermore, our empirical results show that our Heun-based BSDE method consistently outperforms EM-based variants and achieves competitive results with PINNs across multiple high-dimensional benchmarks. Our findings highlight the critical role of integration schemes in BSDE-based PDE solvers, an algorithmic detail that has received little attention thus far in the literature.

Diffusion-and flow-based policies deliver state-of-the-art performance on longhorizon robotic manipulation and imitation learning tasks. However, these controllers employ a fixed inference budget at every control step, regardless of task complexity, leading to computational inefficiency for simple subtasks while potentially underperforming on challenging ones. To address these issues, we introduce Difficulty-Aware Stochastic Interpolant Policy (DA-SIP), a framework that enables robotic controllers to adaptively adjust their integration horizon in real time based on task difficulty. Our approach employs a difficulty classifier that analyzes RGB-D observations to dynamically select the step budget, the optimal solver variant, and ODE/SDE integration at each control cycle. DA-SIP builds upon the stochastic interpolant formulation to provide a unified framework that unlocks diverse training and inference configurations for diffusion-and flow-based policies. Through comprehensive benchmarks across diverse manipulation tasks, DA-SIP achieves 2.6-4.4 reduction in total computation time while maintaining task success rates comparable to fixed maximum-computation baselines. By implementing adaptive computation within this framework, DA-SIP transforms generative robot controllers into efficient, task-aware systems that intelligently allocate inference resources where they provide the greatest benefit.

Data integration approaches are increasingly used to enhance the efficiency and generalizability of studies. However, a key limitation of these methods is the assumption that outcome measures are identical across datasets - an assumption that often does not hold in practice. Consider the following opioid use disorder (OUD) studies: the XBOT trial and the POAT study, both evaluating the effect of medications for OUD on withdrawal symptom severity (not the primary outcome of either trial). While XBOT measures withdrawal severity using the subjective opiate withdrawal scale, POAT uses the clinical opiate withdrawal scale. We analyze this realistic yet challenging setting where outcome measures differ across studies and where neither study records both types of outcomes. Our paper studies whether and when integrating studies with disparate outcome measures leads to efficiency gains.