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Peer-reviewade publikationer — 58665 artiklar

FreeBridge: Variational Schr\"odinger Bridges for Cellular Transition Dynamics
arXiv:2606.11286v1 Announce Type: new Abstract: High-content imaging assays quantify cellular responses to chemical and genetic perturbations, yet continuous trajectories of individual cells are unobservable because cells are chemically fixed at acquisition. Perturbation modeling therefore reduces to inferring stochastic transport between control and treated populations observed only as separate marginals. While recent generative models achieve strong end-point alignment, boundary consistency does not determine intermediate evolution: multiple stochastic processes may connect identical marginals while traversing regions unsupported by observed single-cell morphologies. We introduce \textbf{FreeBridge}, a Schr\"odinger Bridge formulation for single-cell transition modeling under endpoint-only supervision. FreeBridge defines atomic states as instance-segmented single-cell representations, establishing a fixed cellular manifold, and learns stochastic transport constrained within this geometry via empirical latent support regularization. Across BBBC021, RxRx1, and JUMP, FreeBridge maintains competitive or improved endpoint fidelity and mechanism-of-action retention under a unified evaluation protocol; on BBBC021, it further reduces intermediate support violations. These findings highlight the importance of geometric grounding for biologically interpretable perturbation dynamics. Project page: https://y-research-sbu.github.io/FreeBridge/.
Galerkin reduced order model for two-dimensional Rayleigh-Benard convection
arXiv:2504.02961v2 Announce Type: replace Abstract: In this work, Galerkin projection is used to build reduced-order models (ROM) for two-dimensional Rayleigh-B\'enard (RB) convection with no-slip walls. We compare an uncoupled projection approach that uses separate orthonormal bases for velocity and temperature with a coupled formalism where the equations are projected onto a single basis combining velocity and temperature components. Orthonormal bases for modal projection are obtained as the eigenfunctions of the controllability Gramian of the linearized RB equations, eliminating the need for DNS snapshot databases required by traditional POD-based approaches. Various coupled and uncoupled ROMs with different numbers of modes are generated and validated against direct numerical simulations (DNS) over a wide range of Rayleigh numbers. One of the objectives is to determine their domain of validity as a function of the system dimension and the Rayleigh number. DNS and ROM results are compared in terms of mean vertical profiles, heat flux, flow structures, dynamical regimes and energy spectra. Crucially, unlike previous POD-based Galerkin models for thermal convection, these ROMs do not require closure models and remain numerically stable. The coupled approach shows better agreement with DNS in terms of mean vertical profiles and Nusselt number scaling. The capabilities of these models are exploited to conduct a detailed bifurcation analysis at $Pr = 10$ using Poincar\'e sections and Lyapunov exponents, precisely identifying the transitions between periodic, quasiperiodic, and chaotic states with significant reductions of computational cost.
Position: Stop Anthropomorphizing Intermediate Tokens as Reasoning/Thinking Traces!
arXiv:2504.09762v4 Announce Type: replace Abstract: Intermediate token generation (ITG), where a model produces output before the solution, has become a standard method to improve the performance of language models on reasoning tasks. These intermediate tokens have been called \say{reasoning traces} or even \say{thinking traces} -- implicitly anthropomorphizing the traces, and implying that these traces resemble steps a human might take when solving a challenging problem, and as such can provide an interpretable window into the operation of the model's thinking process to the end user. In this position paper, we present evidence that this anthropomorphization isn't a harmless metaphor, and instead is quite dangerous -- it confuses the nature of these models and how to use them effectively, and leads to questionable research. We call on the community to avoid such anthropomorphization of intermediate tokens.
Nonlinearity Reversal in Epsilon-Near-Zero Indium Tin Oxide Driven by Few-Cycle Light Pulse
arXiv:2606.11567v1 Announce Type: new Abstract: Recent breakthrough studies of nonlinearities at extreme pump intensities ($\sim$1 $\text{TW/cm}^2$) in transparent conducting oxides (TCOs) have rewritten our understanding of the dynamics in these materials. However, exploring TCO dynamics beyond these intensities is prohibited by the damage threshold of the material. In this work, we overcome this problem by using a few-cycle pump laser pulse (sub-8\,fs) to maximize the intensity while keeping the optical fluence below the damage threshold. We observe a reversal in the optical response trend starting at optical pump laser intensities of $\sim$5 $\text{TW/cm}^2$ similar to Segal et al. At the highest pump pulse intensities, we obtain a complete change in the sign of the modulation for both transmission and reflection, producing a full-cycle oscillation of the refractive index modulation within 300\,fs. The amplitude of the sign reversal scales quadratically with the intensity. We therefore propose a simple two-photon absorption (TPA) model to explain the observed behaviour. The TPA, which is normally forbidden by the Pauli blocking, is enabled here by intraband excitations from the lower to the upper non-equilibrium states of the conduction band (CB). Such excitations vacate the states at the bottom of the CB, lifting up the blocking and thus making interband TPA possible. The model is in good agreement with experimental results, capturing the essential trends in the observed data and revealing the dynamics of competing channels caused by the interplay between interband and intraband transitions. This intensity-controlled mechanism could be the key to unlocking new applications of TCOs for time-varying photonics such as photonic time crystals.
i1: A Simple and Fully Open Recipe for Strong Text-to-Image Models
arXiv:2606.11289v1 Announce Type: new Abstract: Diffusion models have consistently driven progress in text-to-image generation. However, it is challenging to attribute recent progress to specific modeling and data choices: state-of-the-art open-weight models provide limited ablations, and do not disclose their training data and full training details. The research community needs fully open (weights, data, and code) models as a foundation for further research; yet existing fully open models still fall significantly short of leading models in performance. In this project, we conduct a systematic investigation of the modeling and data design choices in text-to-image diffusion training and inference with 300+ controlled experiments totaling 700K+ TPU v6e hours. Our experiments highlight several empirical findings (e.g., equal weighting is a strong default for mixing curated datasets) and simple design decisions (e.g., larger text encoder adapters improve performance with minimal added parameters) for training strong models. Guided by these insights, we train i1, a 3B-parameter text-to-image diffusion model using only publicly available datasets. i1 is competitive with leading models on five representative benchmarks (GenEval, DPG, PRISM, CVTG-2K, and LongText), and outperforms the best existing fully open model by 29.5 absolute percentage points on average. We provide the i1 checkpoints, training and inference code, and the data processing pipeline. Together, our findings and the i1 recipe establish a practical foundation for future open research in text-to-image diffusion models. Our code is available at https://github.com/zlab-princeton/i1.
FlowBank: Query-Adaptive Agentic Workflows Optimization through Precompute-and-Reuse
arXiv:2606.11290v1 Announce Type: new Abstract: Large Language Model (LLM)-based multi-agent systems are increasingly powerful, but current agentic workflow optimization paradigms make an unsatisfying trade-off. Task-level methods spend substantial offline compute yet deploy only a single workflow, leaving complementary candidates unused, while query-level methods synthesize a new workflow per query at substantial inference cost. Our motivating analysis shows these paradigms are more complementary than competing: workflows discovered during offline search often solve different subsets of queries, and many queries handled by expensive query-level generation can already be solved by cheaper precomputed workflows. This suggests a different objective: rather than searching for one universally best workflow or regenerating one per instance, we should build a compact bank of reusable, complementary workflows and select among them adaptively at inference time. Doing so requires solving three coupled problems: generating complementary rather than redundant candidates, compressing them into a small deployable portfolio, and assigning each query to the right workflow under a performance-cost trade-off. To this end, we present FlowBank, a three-stage framework for portfolio-based agentic workflow optimization. Diversifying proposes DiverseFlow to steer search toward under-covered queries and produce a high-coverage candidate pool. Curating proposes CuraFlow to compress this pool into a compact portfolio with minimal redundancy. Matching casts deployment as edge-value prediction on a query-workflow bipartite graph and routes each incoming query to the portfolio member with the best predicted utility. Across five benchmarks, FlowBank achieves the highest average score among the evaluated methods while remaining cost-competitive, improving over the strongest automated and handcrafted baselines by 4.26% and 14.92% relative, respectively.
Spatially Coupled Phase-to-Depth Calibration for Fringe Projection Profilometry
arXiv:2606.11601v1 Announce Type: new Abstract: In fringe projection profilometry (FPP), depth is commonly recovered by fitting a phase-to-depth relation independently at each camera pixel. Although such pixel-wise calibration achieves high local accuracy, neighboring pixels can acquire markedly different calibration functions even when they observe the same smooth surface, producing spatially inconsistent geometry and structured surface artifacts. We propose a spatially coupled phase-depth transformation in which all pixels share a single low-dimensional mapping-global phase scalars combined with affine spatial terms on the undistorted reference-camera grid-rather than independent per-pixel fits, optionally augmented by a bounded, spatially smooth correction field. We further introduce a native-grid pairing scheme that constructs phase-depth calibration pairs directly on the reference-camera grid: when depth supervision comes from a rectified active-stereo pipeline, planes are fitted in stereo 3D and sampled back onto the camera grid along native rays, so the phase maps are never rectified. On a dental target with high-resolution scanner ground truth, the proposed model attains point-to-surface RMSE comparable to an active-stereo reference (about 12{\mu}m aggregate) while substantially improving spatial coherence over pixel-wise polynomial and rational calibration, and reduces the runtime mapping to a few element-wise operations per pixel with negligible parameter storage.
Learning from almost nothing: How neural networks survive heavy input corruption
arXiv:2606.11319v1 Announce Type: new Abstract: Learning from imperfect data is a central theme in machine learning, connecting practical questions of robustness to fundamental questions of learnability. Here we examine attribute noise: learning from corrupted inputs while keeping the labels intact, a setting that has received considerably less analytical attention than its label-noise counterpart. We consider two types of corruption models: additive noise and replacement noise. Through experiments with multi-layer perceptrons (MLPs) on corrupted classification datasets, we find that neural networks remain robust, maintaining well-above-chance accuracy even when inputs are >90% corrupted -- far beyond human recognition. To understand this robustness, we analyze infinite-width networks in the heavy-corruption regime using a mean-field-inspired approach and derive a leading-order decision rule for the classification outcome: the network implements a prototype rule, the nearest-class-mean, assigning each test point to the class whose training-set average it most closely resembles. This leading-order decision rule is universal across a broad range of MLP architectures, holding for any depth, as well as a wide class of activation functions and noise distributions. The same centroid mechanism closely matches finite-width network behavior in our experiments and provides an interpretable and analytically tractable account of why learning can succeed even when individual training examples carry almost no signal.
A Physics-Inspired Optimizer: Velocity Regularized Adam
arXiv:2505.13196v3 Announce Type: replace Abstract: We introduce Velocity-Regularized Adam (VRAdam), a physics-inspired optimizer for training deep neural networks that draws on ideas from quartic terms for kinetic energy with its stabilizing effects on various system dynamics. Previous algorithms, including the ubiquitous Adam, operate at the so-called adaptive edge of stability regime during training, leading to rapid oscillations and slowed convergence of loss. However, VRAdam adds a higher order penalty on the learning rate based on the velocity such that the algorithm automatically slows down whenever weight updates become large. In practice, we observe that the effective dynamic learning rate shrinks in high-velocity regimes, and damping oscillations. By combining this velocity-based regularizer for global damping with per-parameter scaling of Adam, we create a powerful hybrid optimizer. For this optimizer, we provide rigorous theoretical analysis of operation at the edge of stability from a physical and control perspective for the momentum. Furthermore, we derive convergence bounds with the rate $\mathcal{O}(\ln(N)/\sqrt{N})$ for a stochastic non convex objective under mild assumptions. We demonstrate that VRAdam exceeds the performance against standard optimizers including AdamW. We benchmark various tasks such as image classification, language modeling, and generative modeling using diverse architectures and training methodologies including Convolutional Neural Networks (CNNs), Transformers, and GFlowNets.
Adapting Vision-Language Models from Iconic to Inclusive for Multi-Label Recognition Without Labels
arXiv:2606.11626v1 Announce Type: new Abstract: Understanding multi-label images remains a challenging task in computer vision. With the rapid progress of vision-language multimodal learning, vision-language models (VLMs) enable zero-shot recognition without labeled data. However, due to their intrinsic design, these models often prioritize the most iconic object and omit other contextual positives. This intrinsic bias conflicts with the nature of multi-label learning, thereby limiting their applicability. In this work, we propose an unsupervised framework that adapts VLMs from iconic recognition toward inclusive understanding, enabling label-free multi-label image recognition. Our approach consists of two key stages, ``cutting'' and ``sewing'': In the cutting stage, we present the multi-sampling response estimator to prevent the model from concentrating only on one single object. In the second sewing stage, the multi-object blend adaptation is introduced to adjust the labels to better conform to the multi-label distribution while preserving the intrinsic characteristics of the original model within only one epoch. Extensive experiments show that our framework significantly outperforms existing unsupervised approaches on four public datasets, even surpassing several representative weakly supervised baselines. These results demonstrate the potential of adapting pre-trained VLMs for more comprehensive visual understanding without manual annotations. Our code is publicly available at https://github.com/iCVTEAM/TailorCLIP.
LUCID: Learning Embodiment-Agnostic Intent Models from Unstructured Human Videos for Scalable Dexterous Robot Skill Acquisition
arXiv:2606.11628v1 Announce Type: new Abstract: The most widely-adopted robot learning pipelines today learn skills from robot demonstrations or structured human data, which are expensive to collect and tied to specific embodiments. In contrast, unstructured human videos provide a scalable alternative. They contain diverse manipulation demonstrations across objects, scenes, and strategies, but are not directly connected to robot action. We propose LUCID, a two-stage framework that learns task intent from unstructured human videos drawn from internet-scale datasets and learns robot control in massively-parallel simulation. The intent model predicts short-horizon intent (what should happen next in the scene) from the current observation in closed loop. An embodiment-specific sensorimotor policy converts this intent into robot actions. The intent interface is shared across controllers, so the same intent model can be applied to different embodiments, from our primary dexterous hand to a parallel-jaw gripper. We evaluate LUCID on five real-world manipulation tasks: stirring, wiping, and binning supervised by only internet video, with zero-shot transfer to novel scenes and object instances; and push-T and cable routing supervised by 1 hr each of self-collected smartphone video. Project page: https://lucid-robot.github.io/.
When More Documents Hurt RAG: Mitigating Vector Search Dilution with Domain-Scoped, Model-Agnostic Retrieval
arXiv:2606.11350v1 Announce Type: new Abstract: Retrieval-augmented generation degrades when scaled to large, heterogeneous document collections, where dense similarity loses discriminative power, and top-k retrieval increasingly returns semantically similar but contextually incorrect chunks. We refer to this failure mode as vector search dilution. Even when using hybrid dense+sparse retrieval, we observed this firsthand in a deployed Wyoming Department of Transportation corpus, where scaling from 54 to 1,128 documents (88,907 chunks) reduced accuracy from 75% to below 40%. To address this dilution, we propose MASDR-RAG ( Multi-Agent Scoped Domain Retrieval for RAG) and evaluate it on 200 expert-validated queries across five LLM backbones, six corpora, and two index stacks. Our results indicate that domain scoping using organizational metadata is the key fix, significantly improving P@10 from 0.77 to 0.86 ($p < 0.05$). Furthermore, our investigation of multi-agent orchestration revealed that a high degree of configuration dependence results --creating what we call the precision-faithfulness paradox. Based on these varied outcomes, our practical recommendation is simple: scope first, then perform a single synthesis call, reserving full multi-agent orchestration for genuinely multi-domain corpora paired with native-tool-call backbones. Code and Data will be made public upon acceptance.
\texttt{Range-Arithmetic}: Verifiable Deep Learning Inference on an Untrusted Party
arXiv:2505.17623v2 Announce Type: replace Abstract: Verifiable computing (VC) has gained prominence in decentralized machine learning systems, where resource-intensive tasks like deep neural network (DNN) inference are offloaded to external participants due to blockchain limitations. This creates a need to verify the correctness of outsourced computations without re-execution. We propose \texttt{Range-Arithmetic}, a novel framework for efficient and verifiable DNN inference that transforms non-arithmetic operations, such as rounding after fixed-point matrix multiplication and ReLU, into arithmetic steps verifiable using sum-check protocols and concatenated range proofs. Our approach avoids the complexity of Boolean encoding, high-degree polynomials, and large lookup tables while remaining compatible with finite-field-based proof systems. Experimental results show that our method not only matches the performance of existing approaches, but also reduces the computational cost of verifying the results, the computational effort required from the untrusted party performing the DNN inference, and the communication overhead between the two sides.
A Zero-Shot Multi-Agent Framework for Human-Building Interaction via Programmatic Reasoning
arXiv:2606.11354v1 Announce Type: new Abstract: Large Language Model (LLM) offers opportunities to enhance Human-Building Interaction (HBI) by enabling more direct interactions through intuitive interfaces to complex building systems. These systems can be characterized by the vast amounts of data across multiple formats, the lack of nonconfidential and generalizable information, and the requirement of domain expertise for interpretation. Applying LLMs to domain-specific tasks like HBI presents additional challenges. Limited training data makes traditional fine-tuning approaches impractical. Meanwhile, the opacity of LLM training data requires careful integration of domain knowledge to ensure reliability. Additionally, different LLMs exhibit varying alignment characteristics, suggesting that achieving both natural interaction and technical accuracy requires a multi-agent approach. These challenges highlight the need for innovative approaches to adapt LLMs for specialized domains while maintaining accuracy and user engagement. In this paper, we develop a hierarchical multi-agent framework that utilizes semantic routing and programmatic reasoning to decouple natural language understanding from building analytics. Instead of standard RAG approaches, our system employs a "Doorman" mechanism for task decomposition and specialized coding agents that generate executable Python scripts for precise arithmetic. We validate this framework on a dataset from more than 200 commercial buildings. Results demonstrate the effectiveness in providing accurate and contextual responses for diverse users, including stakeholders, from tenants to building managers, across various building system applications.
Impact of mode completeness on the accuracy of the coupling theory of quasinormal modes: a strict numerical demonstration
arXiv:2606.11630v1 Announce Type: new Abstract: The coupling theory of quasinormal modes (QNMs) for a coupled system of generally lossy and dispersive optical nanoresonators has been established in a rigorous manner based on the first principle of Maxwell's equations [Phys. Rev. B 102, 045430 (2020)], and can achieve superior computational efficiency and physical intuitiveness compared with full-wave numerical methods if a small set of modes can achieve a high accuracy. The QNMs suffer from an exponential divergence of far field and can form a complete basis inside but not outside the resonator. In the QNM coupling theory (QCT), it is required that the QNMs of each resonator form a complete basis in expanding the scattered field both inside and outside the resonator, which can be achieved by using regularized QNMs (RQNMs). However, a strict numerical demonstration of the impact of the mode completeness of RQNMs on the accuracy of QCT by using a virtually complete basis of RQNMs is still absent. In this paper, we will provide such a numerical demonstration along with an improvement of the QCT and some theoretical demonstrations on a rigorous incorporation of RQNMs into the QCT. The RQNMs are obtained by introducing an equivalent surface current (ESC) encircling the resonator (called ESC-RQNMs) or the perfectly matched layer (PML) surrounding the computational domain (called PML-RQNMs). The numerical example is selected as two one-dimensional resonators of slabs in the extreme coupling case of direct contact, for which a virtually complete basis of RQNMs can be solved either analytically (for ESC-RQNMs) or numerically (for PML-RQNMs). The results show that by using a virtually complete basis of RQNMs, the QCT can achieve a high accuracy in predicting both the source-free eigenmodes and the source-excited scattered field of the coupled system, which is not true if using the incomplete basis of not-regularized QNMs (i.e., physical QNMs).
Are LLMs Bad at Moral Reasoning?
arXiv:2606.11635v1 Announce Type: new Abstract: For highly capable AI systems to operate safely in dynamic, open-ended environments, they must be able to identify, understand, and respond to moral reasons for action, and constrain their behaviour accordingly. A growing body of research aims to evaluate this capacity -- moral competence -- in today's most capable AI systems, recently reaching broadly pessimistic conclusions. One of the most ambitious such papers collects gold-standard human-authored rubrics for evaluating moral reasoning in 1,000 cases, and benchmarks frontier AI models against those rubrics, with underwhelming results. In this paper, we argue that the MoReBench dataset can be redeployed to give a much more optimistic picture of LLMs' moral reasoning (an essential part of moral competence). We show that if, instead of scoring LLMs' responses to these cases against these rubrics, we instead give the LLMs the same task given to humans -- to generate scoring rubrics for the moral analysis of particular cases -- the rubrics they generate are both better calibrated to the human rubrics than their open-ended responses, and, where they differ, plausibly reflect nothing more than the vast dimensionality of most moral problems, as well as highlighting some human departures from the "rubric for creating rubrics". Taking these points into consideration, the MoReBench dataset suggests that LLMs are significantly more capable at moral reasoning than was previously believed.
Tree-Structured Orthonormal Decomposition of the Aitchison Simplex
arXiv:2606.11646v1 Announce Type: new Abstract: Compositional data -- vectors encoding relative proportions -- arise across scientific domains, including ecology, geochemistry, and genomics. The features in these data often come with known hierarchical structure (e.g., taxonomies, phylogenies, ontologies), yet existing methods either ignore this structure, discard the intrinsic Aitchison geometry, are designed for binary trees, or yield incomplete coordinate systems. We describe PolyILR, a canonical orthonormal decomposition of the Aitchison tangent space aligned with any tree topology. Our construction defines a weighted local geometry at each internal node capturing full branching structure, then lifts these to a global orthonormal basis where every coordinate corresponds to a specific tree location. On microbiome and single-cell benchmarks, PolyILR yields stable, interpretable features and enables inference at multiscale tree resolution. We also establish a novel theoretical connection to softmax classifiers, suggesting possible applications to probabilistic modeling.
Dummy Backdoor as a Defense: Removing Unknown Backdoors via Shared Internal Mechanisms for Generative LLMs
arXiv:2606.11648v1 Announce Type: new Abstract: Backdoor attacks pose a serious threat to the safety and reliability of Large Language Models (LLMs), as they cause models to behave normally on clean inputs while producing attacker-specified responses when hidden triggers are present. Removing such unknown backdoors is particularly challenging when the defender does not know the backdoor attack types or the internal mechanisms formed through backdoor training. In this work, we propose a simple but effective backdoor removal method based on shared internal mechanisms across different backdoors. First, we show that different backdoors with the same task (attack objective) induce similar trigger-activated changes in the internal activations. Motivated by this observation, our method intentionally embeds a backdoor with a known trigger (\emph{dummy backdoor}) and then removes it through further fine-tuning on dummy-triggered inputs paired with clean responses. Since the dummy backdoor and the unknown backdoor can rely on shared internal mechanisms, removing the dummy backdoor also reduces the effect of the unknown backdoor. We evaluate our method on three backdoor attack types across multiple model families. Experimental results show that our method substantially reduces the attack success rate of the unknown backdoor while preserving model utility, outperforming representative existing defense methods in both backdoor removal effectiveness and utility preservation. These findings suggest that a defender-controllable backdoor can serve as a helpful proxy for mitigating unknown backdoors in generative LLMs.
A localized consensus-based sampling algorithm
arXiv:2505.24861v4 Announce Type: replace Abstract: We propose a localized consensus-based method for sampling from non-Gaussian distributions, a task that frequently arises when solving Bayesian inverse problems. Our method arises from an alternative derivation of consensus-based sampling (CBS). Starting from ensemble-preconditioned Langevin dynamics, we replace the potential by its Moreau envelope -- a smoother approximation -- in order to replace the gradient in the Langevin equation with a proximal operator. We then approximate this operator by a weighted mean. In the limit of infinitely smoothing the potential to a quadratic function, this procedure recovers the standard CBS dynamics. In addition, outside this limit, we retrieve a refined variant of polarized CBS. We call the resulting algorithm localized consensus-based sampling, since particles interact more with nearby particles than with faraway ones. Our method is affine-invariant, exact for Gaussian targets in the mean-field limit, and demonstrates improved robustness over polarized CBS in numerical experiments. Like other consensus-based methods, localized CBS is gradient-free and easily parallelizable.
DeepRHP: A Hybrid Variational Autoencoder for Designing Random Heteropolymers as Protein Mimics
arXiv:2606.11651v1 Announce Type: new Abstract: Synthetic random heteropolymers (RHPs), consisting of a predefined set of monomers, offer an approach toward the design of protein-like materials. These RHPs, if designed appropriately, can mimic protein behavior and function. As such, there is a need for computational tools to efficiently guide RHP design. We bridge this gap by developing DeepRHP, a modified variational autoencoder (VAE) model under a semi-supervised framework. By equipping a classical VAE with an additional feature-based VAE, DeepRHP forces the latent space to capture structures of critical chemical features as well as individual RHP sequence patterns. In this sense, our method is versatile by allowing any relevant features to be incorporated in a hybrid manner. We demonstrate the effectiveness of DeepRHP by suggesting potential monomer compositions that stabilize membrane proteins (e.g. Aquaporin Z) in non-native environments and cross-validating our prediction with published results. The concordance between our model and true RHP function suggests strong potential in utilizing hybrid autoencoder architectures to guide RHP design for proteins and other biological compounds.
Noise-Aware Framework for Correcting Corrupted Labels
arXiv:2606.11695v1 Announce Type: new Abstract: High-quality labeled data is essential for training reliable ML/DL models. However, real-world datasets often contain a considerable proportion of corrupted labels, which can severely degrade model performance. To address this problem, we propose CANOLA, a novel framework for correcting corrupted labels through noise-aware learning and iterative label refinement. CANOLA explicitly estimates the underlying noise distribution of the dataset and incorporates this information into the training of a noise-aware Deep Neural Network. By incorporating noise characteristics during learning, CANOLA enables the model to down-weight unreliable supervision signals and focus on trustworthy patterns, thereby improving robustness and generalization. Label correction is performed via cautious, iterative soft label refinement, in which model predictions are blended with observed labels to prevent premature or erroneous updates. This progressive refinement allows the dataset to be repaired in a stable and controlled manner. We evaluate CANOLA on six widely used datasets under realistic noisy labeling scenarios. Experimental results show that CANOLA consistently outperforms SOTA label correction methods, achieving relative improvements ranging from 19% to 52% in error reduction. Moreover, models trained on datasets corrected by CANOLA obtain substantial downstream performance gains. Even simple classifiers trained on CANOLA's corrected data can outperform complex model-centric approaches by margins of up to 67%.
HiPi: Reproducible High-Fidelity Piezoresistive Sensors for Robotic Manipulation
arXiv:2606.11372v1 Announce Type: new Abstract: Piezoresistive tactile sensors are attractive for robotic manipulation because they are thin, lightweight, low-cost, and scalable to dense large-area sensing. However, existing systems still face a practical trade-off: recent reproducible designs emphasize accessibility and ease of reproduction, whereas high-fidelity readout architectures remain more difficult to fabricate, assemble, and deploy. We present HiPi, a reproducible high-fidelity piezoresistive sensing system for robotic manipulation. Building on a low-crosstalk readout principle, HiPi redesigns the complete hardware stack around reproducibility, deployability, and multi-sensor scalability. The system includes a compact readout PCB compatible with commercial PCB fabrication and assembly services, eliminating manual soldering; a smaller and lower-cost STM32-based MCU module; an optimized communication pipeline that achieves 220 Hz readout in a bimanual setup with four dense tactile arrays (2048 taxels in total); and FPCB-based conductive layers that simplify sensor fabrication and stacking. Experiments with structured 3D-printed contact patterns show that HiPi preserves contact geometry substantially better than a reproducible baseline, improving the average IoU from 0.428 to 0.797 and the average Dice score from 0.539 to 0.886. These results suggest that HiPi bridges an important gap between reproducible fabrication and high-fidelity readout, making dense piezoresistive tactile sensing more practical for bimanual manipulation and multi-fingered robotic systems.
Accurate Estimation of Mutual Information in High Dimensional Data
arXiv:2506.00330v3 Announce Type: replace Abstract: Mutual information (MI) quantifies statistical dependence between variables and is widely used across scientific disciplines, yet accurate estimation from finite data remains notoriously difficult. Common approaches fail in high-dimensional, undersampled regimes ($N \lesssim K$) typical of modern experiments, and no accepted tests exist to detect when neural network-based estimators fail, making them effectively unusable as scientific instruments. We show that neural MI estimators can be made reliable when the statistical dependencies admit a low-dimensional latent representation. Sample complexity is then governed by the latent dimensionality $K_Z \ll K$ rather than the ambient dimension -- a regime shift we confirm empirically and ground theoretically via random matrix theory. Building on this insight, we develop a practical protocol that provides neural estimators with explicit statistical consistency checks, bias correction, and confidence intervals. We additionally introduce a new class of probabilistic critics (the VSIB family) that substantially reduce bias and variance at higher MI values where standard estimators break down. We validate the protocol on synthetic benchmarks ($K=500$, $N$ as low as $256$), on the standard 40-dataset benchmark suite of Czyz et al. (2023), on noisy MNIST ($K=784$), and on CIFAR-10/100 ($K=3072$) with a ResNet-20 backbone. Our protocol consistently matches or exceeds existing methods while being the only approach to report confidence intervals and flag unreliable estimates, achieving reliable MI detection well below the ambient pixel dimension on real images.
Mitigating Disparate Impact of Differentially Private Learning through Bounded Adaptive Clipping
arXiv:2506.01396v2 Announce Type: replace Abstract: Differential privacy (DP) has become an essential framework for privacy-preserving machine learning. Existing DP learning methods, however, often have disparate impacts on model predictions, e.g., for minority groups. Gradient clipping, which is often used in DP learning, can suppress larger gradients from challenging samples. We show that this problem is amplified by adaptive clipping, which will often shrink the clipping bound to tiny values to match a well-fitting majority, while significantly reducing the accuracy for others. We propose bounded adaptive clipping, which introduces a tunable lower bound to prevent excessive gradient suppression. Our method improves worst-class accuracy by over 10 percentage points on Skewed and Fashion MNIST compared to unbounded adaptive clipping, 7 points compared to Automatic clipping, and 5 points compared to constant clipping. The code is available at https://github.com/TrustworthyMLHelsinki/adaptive-clipping-fairness.
When Probing Accuracy Saturates, Fragility Resolves: A Complementary Metric for LLM Pre-Training Analysis
arXiv:2606.11375v1 Announce Type: new Abstract: Standard linear probing declares a property "encoded" when a classifier on hidden states achieves high accuracy. The protocol works well on a snapshot but breaks across pre-training: probe accuracy saturates within the first few thousand steps, leaving most of training invisible to the instrument. We introduce fragility, a complementary per-layer metric defined as the activation-noise level at which probe accuracy collapses. Fragility is sensitive to both the margin of separability and the redundancy of representation, both of which keep evolving long after accuracy plateaus. Applied to open-checkpoint language models, fragility recovers structure that accuracy alone cannot see. Moralized representations emerge along a lexical $\to$ compositional gradient: lexical moral detection first, compositional moral encoding later. Because probe accuracy on its own tracks how lexically separable a dataset is, we establish the compositional encoding directly, by showing it transfers across construction types that share no contrast tokens. A layer-depth robustness gradient develops monotonically across training while accuracy stays flat. And matched fine-tuning corpora that produce identical probing accuracy leave distinct fragility fingerprints, showing that data curation reshapes probe robustness without changing probe accuracy. In every comparison we test, where probing accuracy returns a flat answer, fragility returns a structured one.