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Oct 16

Persistent Depth Ordering amid Shifting Block-Bypass Responses in Language Model Pretraining

Layer interventions are widely used to probe the internal organization of language models, yet most analyses examine a single training checkpoint even though model representations and computations evolve throughout pretraining. This leaves open which depth-dependent intervention responses reflect persistent organization and which are transient consequences of training. We study this question using single-block identity bypass on fixed teacher-forced contexts across five released trajectories and 11 model-domain combinations. We find that block-bypass responses retain recognizable depth ordering while their magnitudes redistribute: nearby checkpoints preserve stronger rank correspondence than distant ones, and large changes concentrate at positions that recur across text samples and transfer across evaluation domains. Controlled experiments further show that changes in the natural bypass effect cannot be reduced to a single downstream sensitivity: in replicated Pythia runs, local missing-update magnitude grows while the pooled matched downstream response decreases, whereas OLMo-2 7B exhibits a different balance. These matched responses also depend on perturbation strength and direction, without identifying targeted compensation. Together, our results show that longitudinal layer sensitivity is structured but not static, and that single-checkpoint intervention responses should be interpreted in the context of how the underlying perturbation pathway evolves during training.

  • 3 authors
·
Sep 30

Disclosure-Gated User Simulation for Companion-Agent Evaluation

Using a large language model to play the user is now standard in scalable evaluation. It has a repeatedly diagnosed failure: the simulated user is excessively cooperative, so a system under test can score by the sheer number of questions it asks rather than by making the user willing to speak. We answer with a disclosure gate conditioning information release on the companion agent's behaviour: its state is a ladder of five ordered gates, merged onto three observable depth layers. We specify, ablate, and audit it, and train a user simulator against that specification. Gating behaviour is learned from the training corpus's synthetic branch, while the real branch supplies how people speak and react; after training, the simulator need not be told at runtime which gate each item sits behind. The gate is a load-bearing component of the environment: on the English corpus of a published companion-agent benchmark (CompanionBench), once training no longer states per example which gate each item sits behind, the largest rank displacement across 12 systems under test exceeds the noise band set by re-running that environment under a new seed, while per-system scores show no detectable change. We state two acceptance criteria: a ranking must be order-preserving, and absolute scores must be scale-stable. Of the candidates we examine, only one passes both -- the simulator we release -- and its leaderboard correlates at 0.993 with the benchmark's original simulator. By contrast, prompting a frontier model as the simulator barely moves the ranking while shifting every score upward -- a shift invisible to anyone checking the ranking alone. The environment we specify is the one that benchmark already used. That publication describes the mechanism in about four hundred words, and we supply what it lacked: specification, ablations, human studies, negative controls, and downstream sensitivity analysis.

  • 2 authors
·
Aug 31

Sensitivity-Aware Visual Parameter-Efficient Fine-Tuning

Visual Parameter-Efficient Fine-Tuning (PEFT) has become a powerful alternative for full fine-tuning so as to adapt pre-trained vision models to downstream tasks, which only tunes a small number of parameters while freezing the vast majority ones to ease storage burden and optimization difficulty. However, existing PEFT methods introduce trainable parameters to the same positions across different tasks depending solely on human heuristics and neglect the domain gaps. To this end, we study where to introduce and how to allocate trainable parameters by proposing a novel Sensitivity-aware visual Parameter-efficient fine-Tuning (SPT) scheme, which adaptively allocates trainable parameters to task-specific important positions given a desired tunable parameter budget. Specifically, our SPT first quickly identifies the sensitive parameters that require tuning for a given task in a data-dependent way. Next, our SPT further boosts the representational capability for the weight matrices whose number of sensitive parameters exceeds a pre-defined threshold by utilizing existing structured tuning methods, e.g., LoRA [23] or Adapter [22], to replace directly tuning the selected sensitive parameters (unstructured tuning) under the budget. Extensive experiments on a wide range of downstream recognition tasks show that our SPT is complementary to the existing PEFT methods and largely boosts their performance, e.g., SPT improves Adapter with supervised pre-trained ViT-B/16 backbone by 4.2% and 1.4% mean Top-1 accuracy, reaching SOTA performance on FGVC and VTAB-1k benchmarks, respectively. Source code is at https://github.com/ziplab/SPT

  • 5 authors
·
Mar 15, 2023

AegisRF: Adversarial Perturbations Guided with Sensitivity for Protecting Intellectual Property of Neural Radiance Fields

As Neural Radiance Fields (NeRFs) have emerged as a powerful tool for 3D scene representation and novel view synthesis, protecting their intellectual property (IP) from unauthorized use is becoming increasingly crucial. In this work, we aim to protect the IP of NeRFs by injecting adversarial perturbations that disrupt their unauthorized applications. However, perturbing the 3D geometry of NeRFs can easily deform the underlying scene structure and thus substantially degrade the rendering quality, which has led existing attempts to avoid geometric perturbations or restrict them to explicit spaces like meshes. To overcome this limitation, we introduce a learnable sensitivity to quantify the spatially varying impact of geometric perturbations on rendering quality. Building upon this, we propose AegisRF, a novel framework that consists of a Perturbation Field, which injects adversarial perturbations into the pre-rendering outputs (color and volume density) of NeRF models to fool an unauthorized downstream target model, and a Sensitivity Field, which learns the sensitivity to adaptively constrain geometric perturbations, preserving rendering quality while disrupting unauthorized use. Our experimental evaluations demonstrate the generalized applicability of AegisRF across diverse downstream tasks and modalities, including multi-view image classification and voxel-based 3D localization, while maintaining high visual fidelity. Codes are available at https://github.com/wkim97/AegisRF.

  • 7 authors
·
Oct 21, 2025

POSIX: A Prompt Sensitivity Index For Large Language Models

Despite their remarkable capabilities, Large Language Models (LLMs) are found to be surprisingly sensitive to minor variations in prompts, often generating significantly divergent outputs in response to minor variations in the prompts, such as spelling errors, alteration of wording or the prompt template. However, while assessing the quality of an LLM, the focus often tends to be solely on its performance on downstream tasks, while very little to no attention is paid to prompt sensitivity. To fill this gap, we propose POSIX - a novel PrOmpt Sensitivity IndeX as a reliable measure of prompt sensitivity, thereby offering a more comprehensive evaluation of LLM performance. The key idea behind POSIX is to capture the relative change in loglikelihood of a given response upon replacing the corresponding prompt with a different intent-preserving prompt. We provide thorough empirical evidence demonstrating the efficacy of POSIX in capturing prompt sensitivity and subsequently use it to measure and thereby compare prompt sensitivity of various open-source LLMs. We find that merely increasing the parameter count or instruction tuning does not necessarily reduce prompt sensitivity whereas adding some few-shot exemplars, even just one, almost always leads to significant decrease in prompt sensitivity. We also find that alterations to prompt template lead to the highest sensitivity in the case of MCQ type tasks, whereas paraphrasing results in the highest sensitivity in open-ended generation tasks. The code for reproducing our results is open-sourced at https://github.com/kowndinya-renduchintala/POSIX.

  • 4 authors
·
Oct 3, 2024

SIMAX: A Scalable and Interpretable Framework for Multi-Fidelity and Annotated Clinician-Patient Dialogue Simulation

Background. The widespread deployment of ambient digital scribes is driving large-scale capture of clinician-patient dialogues. Human coding of clinical communication data remains costly, inconsistent, and difficult to scale, motivating AI-driven communication coding systems. However, evaluating these systems requires real-world dialogues and human-coded labels, both hard to obtain at scale. Methods. We developed SIMAX (Scalable and Interpretable Framework for Multi-Fidelity and Annotated Clinician-Patient Dialogue Simulation), a framework for generating controlled clinical dialogue data with reference behavioral annotations. SIMAX generates clinician-patient dialogues from predefined clinical scenarios, personas and voice conditions, and target communication behaviors. Behaviors are controlled using two codebooks: the Global Codebook for overall communication quality and the WISER Codebook for specific countable behaviors. We evaluated SIMAX using automated and human quality assessments and an example communication coding system. Results. SIMAX generated 3,388 simulated dialogues across three specialties, multiple visit stages, persona characteristics, and accent conditions. Automated assessment showed mean UTMOS and WV-MOS scores of 3.03 and 2.61, WER and CER of 0.07 and 0.05, and CLAP cosine similarity of 0.41, suggesting reasonable speech naturalness, high transcription fidelity, and positive text-audio correspondence. Human evaluation showed a median MOS of 4.67 and a median clinical realism score of 3.00. Downstream evaluation suggests that SIMAX can assess how a communication coding system responds to behavioral targets and reveal insufficient sensitivity in some dimensions. Conclusions. SIMAX generates controlled and reproducible simulated clinician-patient dialogues, providing a data foundation for developing, validating, and refining communication coding systems.

  • 19 authors
·
Jun 28

DiffEEG: A Self-Supervised Denoising Diffusion Model for Learning EEG Generic Representations

Deep learning for EEG-based seizure detection faces critical challenges: severe annotation scarcity and extreme class imbalance, where ictal events comprise less than 10\% of clinical recordings. We present DiffEEG, a 9.6M-parameter self-supervised foundation model that addresses both limitations through denoising diffusion pre-training and reinforcement learning (RL)-based fine-tuning. Pre-trained on 1.3M unlabeled segments from the Temple University Hospital Seizure Corpus (TUHSZ), DiffEEG learns generic neural representations via a 1D U-Net with multi-head self-attention. For downstream adaptation, a reinforced decision layer employs policy gradient optimization to directly maximize F1-score, prioritizing sensitivity to rare seizure events over overall accuracy. Under strict patient-wise evaluation (279 patients, Leave-One-Fold-Out), DiffEEG achieves 61\% accuracy and 59\% F1 for 4-class seizure subtyping, and 81\% accuracy with 85\% weighted F1 for binary detection, maintaining clinically viable seizure recall (59\%) despite extreme imbalance (6.7\% prevalence). Segment-level evaluation establishes an upper bound of 97.6\% accuracy, confirming strong architectural capacity. DiffEEG demonstrates that diffusion-based pre-training combined with metric-aware reinforcement learning enables clinically deployable seizure monitoring with minimal labeled data requirements.

  • 5 authors
·
Jul 12

FlexMoRE: A Flexible Mixture of Rank-heterogeneous Experts for Efficient Federatedly-trained Large Language Models

Recent advances in mixture-of-experts architectures have shown that individual experts models can be trained federatedly, i.e., in isolation from other experts by using a common base model to facilitate coordination. However, we hypothesize that full-sized experts may not be necessary for all domains and that instead low-rank adapters may be sufficient. Here, we introduce FlexMoRE, a Flexible Mixture of Rank-heterogenous Experts, which may be either full-sized experts or adapters of a suitable rank. We systematically investigate the trade-off between expert rank and downstream task performance by evaluating 6 experts with ranks 2^0 to 2^{14} resulting in experiments covering 150 mixtures (96 with 2 experts, 54 with 7 experts) that are evaluated across 120 tasks. For our experiments, we build on FlexOlmo and turn its pre-trained experts into low-rank versions. Our regression analysis from expert rank to downstream task performance reveals that the best-performing rank is substantially higher for reasoning-heavy benchmarks than for knowledge-heavy benchmarks. These findings on rank sensitivity come with direct implications for memory efficiency: Using optimal ranks, FlexMoRE yields improved downstream task performance (average score 47.18) compared to the baseline FlexOlmo-style mixture of full-sized experts (average score 45.46) at less than one third the parameters (10.75B for FlexMoRE vs. 33.27B for FlexOlmo). All code will be made available.

On the Generalization of Representation Uncertainty in Earth Observation

Recent advances in Computer Vision have introduced the concept of pretrained representation uncertainty, enabling zero-shot uncertainty estimation. This holds significant potential for Earth Observation (EO), where trustworthiness is critical, yet the complexity of EO data poses challenges to uncertainty-aware methods. In this work, we investigate the generalization of representation uncertainty in EO, considering the domain's unique semantic characteristics. We pretrain uncertainties on large EO datasets and propose an evaluation framework to assess their zero-shot performance in multi-label classification and segmentation EO tasks. Our findings reveal that, unlike uncertainties pretrained on natural images, EO-pretraining exhibits strong generalization across unseen EO domains, geographic locations, and target granularities, while maintaining sensitivity to variations in ground sampling distance. We demonstrate the practical utility of pretrained uncertainties showcasing their alignment with task-specific uncertainties in downstream tasks, their sensitivity to real-world EO image noise, and their ability to generate spatial uncertainty estimates out-of-the-box. Initiating the discussion on representation uncertainty in EO, our study provides insights into its strengths and limitations, paving the way for future research in the field. Code and weights are available at: https://github.com/Orion-AI-Lab/EOUncertaintyGeneralization.

  • 6 authors
·
Mar 10, 2025

Robust and Efficient Fine-tuning of LLMs with Bayesian Reparameterization of Low-Rank Adaptation

Large Language Models (LLMs) are highly resource-intensive to fine-tune due to their enormous size. While low-rank adaptation is a prominent parameter-efficient fine-tuning approach, it suffers from sensitivity to hyperparameter choices, leading to instability in model performance on fine-tuning downstream tasks. This paper highlights the importance of effective parameterization in low-rank fine-tuning to reduce estimator variance and enhance the stability of final model outputs. We propose MonteCLoRA, an efficient fine-tuning technique that employs Monte Carlo estimation to learn an unbiased posterior estimation of low-rank parameters with low expected variance, stabilizing fine-tuned LLMs with only O(r) additional parameters, for a given rank r. MonteCLoRA shows 0.5% and 1.6% improvements in accuracy and robustness over unregularized low-rank adaptation method on natural language understanding tasks with pre-trained RoBERTa-base. Furthermore, in generative tasks with pre-trained LLaMA-1-7B and LLaMA-3.2-3B-Instruct, MonteCLoRA demonstrates robust performance with 50% and 62% lower spreads respectively than the contemporary efficient fine-tuning methods. The theoretical and empirical results presented in the paper underscore how parameterization and hyperpriors balance exploration-exploitation in the low-rank parametric space, therefore leading to more optimal and robust parameter estimation during efficient fine-tuning.

  • 8 authors
·
Aug 2, 2025 1

Representation Redistribution in Sparse Autoencoders

Sparse autoencoders (SAEs) decompose language model activations into sparse features, but prompt transformations designed to preserve the underlying request can redistribute activity across them. A feature change observed on one transformed prompt need not recur, and even a recurring change need not affect a downstream computation. We introduce the redistribution sensitivity score (RSS), which identifies large feature responses that recur in a consistent direction, and evaluate the resulting supports on variants excluded from selection. Across 27 pretrained SAEs spanning eight language models, the tested prompt transformations produce a reproducible redistribution profile on these excluded variants. We then separate recurring representation change from signed readout contribution and decision failure. For a fixed linear readout, an exact decomposition shows how response magnitude, readout coefficients, directional alignment, and the clean margin determine downstream consequences. In two frozen safety readouts, combining RSS support erosion with the full clean margin yields recurrent failure AUROCs of 0.935 and 0.958 using median supports of 20 and 19 features, compared with 0.965 and 0.964 using full erosion. RSS therefore provides a way to identify recurring sparse representation changes and quantify their contribution to a downstream readout without equating representation change with failure. Code is available at https://github.com/OpenSAE/Redistribution-Sensitivity-Score

  • 2 authors
·
Oct 14

Drop-Then-Recovery: How Redundant Are Vision-Language-Action Models?

Vision-Language-Action (VLA) models enable instruction-driven robotic manipulation, but they inherit oversized language backbones from pretrained VLMs whose capacity far exceeds what is needed for short robotic instructions. This raises a basic question: how much of a VLA model is actually necessary for closed-loop control? In this work, we study architectural redundancy in VLA models by using transformer block removal as a controlled intervention. We introduce Drop-Then-Recovery (DTR), an analysis protocol that removes selected blocks from a pretrained VLA model and then fine-tunes the resulting model to measure whether the removed capacity was necessary for downstream control. To make this intervention reliable, we propose GateProbe, a one-shot virtual-gate sensitivity metric that ranks blocks by their contribution to the downstream action loss. Across multiple VLA architectures, manipulation benchmarks and even real-robot industrial scenarios, we find a strong asymmetry in post-removal recoverability: \textit{language backbones are highly redundant for standard robotic manipulation tasks, whereas vision and action pathways are substantially less tolerant to removal}. On LIBERO, removing half of the LLM blocks even improves OpenVLA-OFT from 95.0% to 98.3% under the same downstream fine-tuning budget, and retaining only two language blocks still recovers baseline-level performance. These results suggest that current VLA benchmarks may exert limited pressure on deep language grounding and compositional instruction understanding, and that future VLA architectures should allocate capacity more deliberately across language, vision, and action components. The code is available at https://github.com/s1ghhh/VLADrop.

LLM-Drop LLM-Drop
·
Jun 25 2

Trustworthy Visual Predicates for Robust Manipulation Understanding under Degradation

Manipulation understanding requires reliable relational evidence, such as contact, support, containment, motion coupling, grasp, release, and active-hand involvement. Although these visual predicates are widely used in event-chain, graph-based, and neuro-symbolic models, their reliability under visual degradation is rarely analyzed directly. This paper introduces a predicate-level reliability framework for robust manipulation understanding under blur, occlusion, illumination change, low resolution, frame dropping, and detection noise. The framework defines a structured predicate vocabulary, confidence-aware predicate estimation, and reliability metrics for predicate preservation, degradation sensitivity, temporal consistency, confidence-weighted stability, and downstream impact. Experiments on controlled manipulation videos and public egocentric or bimanual datasets, including VISOR/EPIC-KITCHENS, H2O, and ARCTIC, show that predicate failures are structured rather than uniform. Static spatial predicates remain comparatively robust, whereas contact-sensitive, dynamic, and derived predicates such as grasp and release are more fragile. Under severe degradation, detection noise, occlusion, and frame dropping cause the strongest reliability losses. Downstream analysis shows that degraded predicates reduce manipulation-understanding accuracy from 0.89 to 0.58, while removing confidence weighting under moderate degradation reduces accuracy from 0.74 to 0.64. These results show that predicate reliability provides a diagnostic layer between visual perception and structured manipulation reasoning.

  • 1 authors
·
Jun 5

DriveQA: Passing the Driving Knowledge Test

If a Large Language Model (LLM) were to take a driving knowledge test today, would it pass? Beyond standard spatial and visual question-answering (QA) tasks on current autonomous driving benchmarks, driving knowledge tests require a complete understanding of all traffic rules, signage, and right-of-way principles. To pass this test, human drivers must discern various edge cases that rarely appear in real-world datasets. In this work, we present DriveQA, an extensive open-source text and vision-based benchmark that exhaustively covers traffic regulations and scenarios. Through our experiments using DriveQA, we show that (1) state-of-the-art LLMs and Multimodal LLMs (MLLMs) perform well on basic traffic rules but exhibit significant weaknesses in numerical reasoning and complex right-of-way scenarios, traffic sign variations, and spatial layouts, (2) fine-tuning on DriveQA improves accuracy across multiple categories, particularly in regulatory sign recognition and intersection decision-making, (3) controlled variations in DriveQA-V provide insights into model sensitivity to environmental factors such as lighting, perspective, distance, and weather conditions, and (4) pretraining on DriveQA enhances downstream driving task performance, leading to improved results on real-world datasets such as nuScenes and BDD, while also demonstrating that models can internalize text and synthetic traffic knowledge to generalize effectively across downstream QA tasks.

  • 3 authors
·
Aug 29, 2025

Distilling Photon-Counting CT into Routine Chest CT through Clinically Validated Degradation Modeling

Photon-counting CT (PCCT) provides superior image quality with higher spatial resolution and lower noise compared to conventional energy-integrating CT (EICT), but its limited clinical availability restricts large-scale research and clinical deployment. To bridge this gap, we propose SUMI, a simulated degradation-to-enhancement method that learns to reverse realistic acquisition artifacts in low-quality EICT by leveraging high-quality PCCT as reference. Our central insight is to explicitly model realistic acquisition degradations, transforming PCCT into clinically plausible lower-quality counterparts and learning to invert this process. The simulated degradations were validated for clinical realism by board-certified radiologists, enabling faithful supervision without requiring paired acquisitions at scale. As outcomes of this technical contribution, we: (1) train a latent diffusion model on 1,046 PCCTs, using an autoencoder first pre-trained on both these PCCTs and 405,379 EICTs from 145 hospitals to extract general CT latent features that we release for reuse in other generative medical imaging tasks; (2) construct a large-scale dataset of over 17,316 publicly available EICTs enhanced to PCCT-like quality, with radiologist-validated voxel-wise annotations of airway trees, arteries, veins, lungs, and lobes; and (3) demonstrate substantial improvements: across external data, SUMI outperforms state-of-the-art image translation methods by 15% in SSIM and 20% in PSNR, improves radiologist-rated clinical utility in reader studies, and enhances downstream top-ranking lesion detection performance, increasing sensitivity by up to 15% and F1 score by up to 10%. Our results suggest that emerging imaging advances can be systematically distilled into routine EICT using limited high-quality scans as reference.

  • 13 authors
·
Apr 7

Quantize by Drift: Label-Free Mixed-Precision Post-Training Quantization for Text Embedders

Mixed-precision post-training quantization needs a per-module sensitivity signal; for a text embedder the obvious one -- the retrieval quality a module costs when quantized -- needs relevance labels that deployments rarely have. We measure a label-free substitute: quantization-induced representation drift, obtained by quantizing one module, re-encoding the corpus, and recording how far the output embeddings moved from their full-precision positions. What is specific is the observable: the deployed output representation a dense retriever ranks with. Across five development embedders, configuration-level drift orders sampled mixed-precision plans against held-out retrieval quality at a macro Spearman of 0.911, the sensitivity transports across calibration corpora and retrieval domains in the usable regime, module drifts compose rank-consistently but not numerically, and relevance-derived sensitivity adds no consistent value. The method is one additive allocation under a hard packed-byte budget, with no labels and no search. On three embedders held untouched until method, baselines and hypotheses were frozen and sealed, the pre-registered directional hypothesis against the prior LieQ criterion holds (3/3 at the main budget, no collapse) and drift scores above a two-sided LieQ steelman in 2/3; but at the main budget drift is numerically lower than same-budget uniform precision on all three (-0.99, -0.85, -1.01 points), having reduced module and whole-model drift as designed. Output drift is thus a robust coarse sensitivity signal, not a universally optimal allocation objective: it avoids the catastrophic failures of the transferred signed-geometry adaptation and can remain usable at stressed budgets where uniform collapses, but fine-grained redistribution around a strong uniform operating point remains unresolved.

  • 3 authors
·
Oct 5

How to Enhance Downstream Adversarial Robustness (almost) without Touching the Pre-Trained Foundation Model?

With the rise of powerful foundation models, a pre-training-fine-tuning paradigm becomes increasingly popular these days: A foundation model is pre-trained using a huge amount of data from various sources, and then the downstream users only need to fine-tune and adapt it to specific downstream tasks. However, due to the high computation complexity of adversarial training, it is not feasible to fine-tune the foundation model to improve its robustness on the downstream task. Observing the above challenge, we want to improve the downstream robustness without updating/accessing the weights in the foundation model. Inspired from existing literature in robustness inheritance (Kim et al., 2020), through theoretical investigation, we identify a close relationship between robust contrastive learning with the adversarial robustness of supervised learning. To further validate and utilize this theoretical insight, we design a simple-yet-effective robust auto-encoder as a data pre-processing method before feeding the data into the foundation model. The proposed approach has zero access to the foundation model when training the robust auto-encoder. Extensive experiments demonstrate the effectiveness of the proposed method in improving the robustness of downstream tasks, verifying the connection between the feature robustness (implied by small adversarial contrastive loss) and the robustness of the downstream task.

  • 3 authors
·
Apr 15, 2025

Real-Time Prediction of Gas Flow Dynamics in Diesel Engines using a Deep Neural Operator Framework

We develop a data-driven deep neural operator framework to approximate multiple output states for a diesel engine and generate real-time predictions with reasonable accuracy. As emission norms become more stringent, the need for fast and accurate models that enable analysis of system behavior have become an essential requirement for system development. The fast transient processes involved in the operation of a combustion engine make it difficult to develop accurate physics-based models for such systems. As an alternative to physics based models, we develop an operator-based regression model (DeepONet) to learn the relevant output states for a mean-value gas flow engine model using the engine operating conditions as input variables. We have adopted a mean-value model as a benchmark for comparison, simulated using Simulink. The developed approach necessitates using the initial conditions of the output states to predict the accurate sequence over the temporal domain. To this end, a sequence-to-sequence approach is embedded into the proposed framework. The accuracy of the model is evaluated by comparing the prediction output to ground truth generated from Simulink model. The maximum mathcal L_2 relative error observed was approximately 6.5%. The sensitivity of the DeepONet model is evaluated under simulated noise conditions and the model shows relatively low sensitivity to noise. The uncertainty in model prediction is further assessed by using a mean ensemble approach. The worst-case error at the (mu + 2sigma) boundary was found to be 12%. The proposed framework provides the ability to predict output states in real-time and enables data-driven learning of complex input-output operator mapping. As a result, this model can be applied during initial development stages, where accurate models may not be available.

  • 4 authors
·
Apr 2, 2023

Regularized Mask Tuning: Uncovering Hidden Knowledge in Pre-trained Vision-Language Models

Prompt tuning and adapter tuning have shown great potential in transferring pre-trained vision-language models (VLMs) to various downstream tasks. In this work, we design a new type of tuning method, termed as regularized mask tuning, which masks the network parameters through a learnable selection. Inspired by neural pathways, we argue that the knowledge required by a downstream task already exists in the pre-trained weights but just gets concealed in the upstream pre-training stage. To bring the useful knowledge back into light, we first identify a set of parameters that are important to a given downstream task, then attach a binary mask to each parameter, and finally optimize these masks on the downstream data with the parameters frozen. When updating the mask, we introduce a novel gradient dropout strategy to regularize the parameter selection, in order to prevent the model from forgetting old knowledge and overfitting the downstream data. Experimental results on 11 datasets demonstrate the consistent superiority of our method over previous alternatives. It is noteworthy that we manage to deliver 18.73% performance improvement compared to the zero-shot CLIP via masking an average of only 2.56% parameters. Furthermore, our method is synergistic with most existing parameter-efficient tuning methods and can boost the performance on top of them. Project page can be found here (https://wuw2019.github.io/R-AMT/).

  • 9 authors
·
Jul 27, 2023

Why Has Predicting Downstream Capabilities of Frontier AI Models with Scale Remained Elusive?

Predictable behavior from scaling advanced AI systems is an extremely desirable property. Although a well-established literature exists on how pretraining performance scales, the literature on how particular downstream capabilities scale is significantly muddier. In this work, we take a step back and ask: why has predicting specific downstream capabilities with scale remained elusive? While many factors are certainly responsible, we identify a new factor that makes modeling scaling behavior on widely used multiple-choice question-answering benchmarks challenging. Using five model families and twelve well-established multiple-choice benchmarks, we show that downstream performance is computed from negative log likelihoods via a sequence of transformations that progressively degrade the statistical relationship between performance and scale. We then reveal the mechanism causing this degradation: downstream metrics require comparing the correct choice against a small number of specific incorrect choices, meaning accurately predicting downstream capabilities requires predicting not just how probability mass concentrates on the correct choice with scale, but also how probability mass fluctuates on specific incorrect choices with scale. We empirically study how probability mass on the correct choice co-varies with probability mass on incorrect choices with increasing compute, suggesting that scaling laws for incorrect choices might be achievable. Our work also explains why pretraining scaling laws are commonly regarded as more predictable than downstream capabilities and contributes towards establishing scaling-predictable evaluations of frontier AI models.

  • 9 authors
·
Jun 6, 2024

Correlation Is Not Enough: Embedding Human Metadata for Individual Causal Discovery

Ask a pretrained biomedical language model whether "cortisol 28 ug/dL" and "stock-market volatility" are related, and it returns a cosine similarity of 0.83 on a scale where 1.0 means identical. The two share no mechanism. This is not a corner case: every off-the-shelf biomedical encoder we tested (BioBERT, PubMedBERT, BioM-ELECTRA) scores unrelated cross-domain pairs between 0.76 and 0.92 when the answer should be near zero. Accuracy on cross-domain discrimination is 0%. Retrieval systems survive this, because a language model downstream filters the noise. A Large Behavioural Model (LBM), a foundation model whose subject is a person rather than a sentence, does not: it reasons over a graph of a user's life and treats embedding proximity as evidence that two events are causally linked. False proximity writes a false causal edge, and everything downstream inherits the error. Here, embedding geometry is not a tuning knob; it is correctness. We report the fix. A contrastive pass over 72,034 pairs raises PubMedBERT BIOSSES correlation from 0.633 to 0.828 and within-vs-across-domain separation from 1.05x to 1.63x. A second pass, BODHI, mines hard negatives from edges absent in a biomedical knowledge graph and lifts separation to 2.30x and the discrimination gap to +0.392, at a 4.5% BIOSSES cost. On an Intel Xeon 6737P with AMX, OpenVINO cuts single-query latency from 1367 ms to 10 ms (133x) and reaches 555 sentences/sec. One finding contradicts standard advice: FP16 beats INT8 on this silicon at every serving batch size, and we explain why. The same model on a no-AMX Ice Lake instance runs 13-27x slower. We release the benchmark suite, training corpora, the BODHI generator, and the OpenVINO scripts.

  • 3 authors
·
Jun 7

Monroe: A Molecular Foundation Model for In-Context Probabilistic Inference

Bioassay activity prediction is often data-limited because drug-discovery datasets rely on time-consuming and expensive wet-lab experiments for data generation and evaluation. This challenge has inspired recent research into molecular foundation models (MFMs), which aim to encode general-purpose chemical knowledge into molecular representations that generalize well in data-constrained scenarios. This paper presents Monroe, a new MFM with several innovations over the existing state of the art: increased scale allowing pre-training on over 81 million molecules from the PM6 quantum chemistry dataset; improved graph representation of stereochemistry; improved training losses including conformer denoising and embedding decorrelation; improved multi-task learning; and the use of a prior-data-fitted model (TabPFN) for downstream in-context prediction. Our evaluations use a principled pairwise comparison framework that measures statistically significant performance differences. Across established Polaris benchmarks, Monroe matches or exceeds existing MFMs, while on activity cliff benchmarks, designed to assess utility for molecular discovery, it achieves significant improvements over prior methods. Finally, ablation and transfer experiments show that PFN-based downstream predictors also substantially improve two leading existing models, MiniMol and CheMeleon, yielding new state-of-the-art variants we call MiniMol_PFN and CheMeleon_PFN, suggesting that our downstream adaptation strategy generalizes beyond Monroe. Source code is at github.com/blazejba/monroe.

  • 2 authors
·
Aug 19

Rethinking Supervised Pre-training for Better Downstream Transferring

The pretrain-finetune paradigm has shown outstanding performance on many applications of deep learning, where a model is pre-trained on a upstream large dataset (e.g. ImageNet), and is then fine-tuned to different downstream tasks. Though for most cases, the pre-training stage is conducted based on supervised methods, recent works on self-supervised pre-training have shown powerful transferability and even outperform supervised pre-training on multiple downstream tasks. It thus remains an open question how to better generalize supervised pre-training model to downstream tasks. In this paper, we argue that the worse transferability of existing supervised pre-training methods arise from the negligence of valuable intra-class semantic difference. This is because these methods tend to push images from the same class close to each other despite of the large diversity in their visual contents, a problem to which referred as "overfit of upstream tasks". To alleviate this problem, we propose a new supervised pre-training method based on Leave-One-Out K-Nearest-Neighbor, or LOOK for short. It relieves the problem of overfitting upstream tasks by only requiring each image to share its class label with most of its k nearest neighbors, thus allowing each class to exhibit a multi-mode distribution and consequentially preserving part of intra-class difference for better transferring to downstream tasks. We developed efficient implementation of the proposed method that scales well to large datasets. Experimental studies on multiple downstream tasks show that LOOK outperforms other state-of-the-art methods for supervised and self-supervised pre-training.

  • 5 authors
·
Oct 12, 2021

Excess Separability: Nuisance-Controlled Residual-Stream Probing for Benchmark Contamination Detection

Benchmark contamination is diagnosed with n-gram overlap, likelihood-based membership inference, or canary strings, and each needs something usually unavailable: the training corpus, a well-chosen test statistic, or foresight at release. A recent alternative reads it off a linear probe on internal activations. We show the natural way to do this does not work, specify one that survives measurement, then find that the correction making it work carries more variance than the null it is tested against. The protocol reports a zero-sum contrast on the depth profile of probe accuracy, recentred on a level-matched placebo baseline, tested against a label-permutation null, with the reference set twice the size of the suspect set. Each choice replaces a simpler alternative we rejected on measurement. Reporting the level of excess separability rather than its shape makes the false positive rate track the size of the analyst's own control set, 0.03 to 0.99 under a true null. Contrasting against a flat depth profile rejects a true null 0.72 of the time when surface decodability rises with depth, and loses all power when it falls. On real transformers the protocol fails a test the simulations did not pose. The recentring subtracts an estimate, and the permutation null holds it fixed. Re-estimated across split seeds on four audits of contaminated checkpoints, its standard deviation is 1.30 to 1.56 times the null's own in every arm: what is subtracted to remove a bias is more variable than what it corrects. The one nominally significant result, p = 0.0075, becomes 0.0745 once that variance is propagated, and no verdict is issued. The simulations missed this because their surface key is the covariate driving item variation; on real text it is a proxy, and degrading key quality in simulation reproduces it. We add a companion measurement and a widened null. No arm shows contamination.

  • 1 authors
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Aug 15

AEGIS: Assay-Aware Protocol Validation and Runtime Monitoring for Open-Source Liquid Handling Robots

Self-driving laboratories increasingly rely on low-cost liquid handlers such as the Opentrons OT-2, which ship without the pressure-based aspiration monitoring of Hamilton or Tecan systems and are typically run open-loop. Two failure modes go undetected: protocols that are syntactically valid but violate assay-specific invariants (e.g., tip reuse between a PCR template and a no-template control), and physical execution failures (partial dispense, air bubbles, missing tips) at runtime. We present AEGIS, a two-layer guardian for both. Layer 1 pairs a curated machine-readable assay rule database with an LLM that reasons over OT-2 Python code, reaching an adjusted F1 of 0.97 on a 24-protocol benchmark across five assay families and beating rules-only and LLM-only ablations across five backends; a free open-weight model ties the best proprietary one, so no paid API is required. Layer 2 fits a PCA world model to YOLO-cropped four-frame pipette trajectories; under a leakage-free leave-one-plate-out evaluation it reaches average precision 0.89 and operating-point F1 0.71 (AUROC 0.80), a deployment-faithful number that matches the live demonstration, and we characterize the small-pipette (p20) resolution limit (F1 0.47). A live demonstration on a physical OT-2 (five replicates per condition) catches planted no-tip failures deterministically and partial dispense on coloured dyes, with an always-VLM self-vote gate lifting partial-dispense recall to 5/5; transparent water is a principled limit of any front-view-only monitor, which AEGIS surfaces as low-confidence VLM reasoning rather than a wrong verdict. Cascade triage holds VLM cost near 1.63 per plate versus 10.33 for an always-VLM baseline. AEGIS is open source and, to our knowledge, the first system to unify pre-flight assay-aware validation with runtime visual monitoring for an open-source liquid handler.

  • 4 authors
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Jul 16

Downstream Transfer Attack: Adversarial Attacks on Downstream Models with Pre-trained Vision Transformers

With the advancement of vision transformers (ViTs) and self-supervised learning (SSL) techniques, pre-trained large ViTs have become the new foundation models for computer vision applications. However, studies have shown that, like convolutional neural networks (CNNs), ViTs are also susceptible to adversarial attacks, where subtle perturbations in the input can fool the model into making false predictions. This paper studies the transferability of such an adversarial vulnerability from a pre-trained ViT model to downstream tasks. We focus on sample-wise transfer attacks and propose a novel attack method termed Downstream Transfer Attack (DTA). For a given test image, DTA leverages a pre-trained ViT model to craft the adversarial example and then applies the adversarial example to attack a fine-tuned version of the model on a downstream dataset. During the attack, DTA identifies and exploits the most vulnerable layers of the pre-trained model guided by a cosine similarity loss to craft highly transferable attacks. Through extensive experiments with pre-trained ViTs by 3 distinct pre-training methods, 3 fine-tuning schemes, and across 10 diverse downstream datasets, we show that DTA achieves an average attack success rate (ASR) exceeding 90\%, surpassing existing methods by a huge margin. When used with adversarial training, the adversarial examples generated by our DTA can significantly improve the model's robustness to different downstream transfer attacks.

  • 5 authors
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Aug 3, 2024

Beyond Visual Fidelity: Benchmarking Super-Resolution Models for Large-Scale Remote Sensing Imagery via Downstream Task Integration

Super-resolution (SR) techniques have made major advances in reconstructing high-resolution images from low-resolution inputs. The increased resolution provides visual enhancement and utility for monitoring tasks. In particular, SR has been increasingly developed for satellite-based Earth observation, with applications in urban planning, agriculture, ecology, and disaster response. However, existing SR studies and benchmarks typically use fidelity metrics such as PSNR or SSIM, whereas the true utility of super-resolved images lies in supporting downstream tasks such as land cover classification, biomass estimation, and change detection. To bridge this gap, we introduce GeoSR-Bench, a downstream task-integrated SR benchmark dataset to evaluate SR models beyond fidelity metrics. GeoSR-Bench comprises spatially co-located, temporally aligned, and quality-controlled image pairs from about 36,000 locations across diverse land covers, spanning resolutions from 500m to 0.6m. To the best of our knowledge, GeoSR-Bench is the first SR benchmark that directly connects improved image resolution from SR models with downstream Earth monitoring tasks, including land cover segmentation, infrastructure mapping, and biophysical variable estimation. Using GeoSR-Bench, we benchmark GAN, transformer, neural operator, and diffusion-based SR models on perceptual quality and downstream task performance. We conduct experiments with 270 settings, covering 2 cross-platform SR tasks, 9 SR models, 3 downstream task models, and 5 downstream tasks for each SR task. The results show that improvements in traditional SR metrics often do not correlate with gains in task performance, and the correlations can be negative, indicating that these metrics provide limited guidance for selecting superior models for downstream tasks. This reveals the need to integrate downstream tasks into SR model development and evaluation.

  • 9 authors
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Apr 30

Small Edits, Big Consequences: Telling Good from Bad Robustness in Large Language Models

Large language models (LLMs) now write code in settings where misreading a single word can break safety or cost money, yet we still expect them to overlook stray typos. To probe where useful robustness ends and harmful insensitivity begins, we compile 50 LeetCode problems and craft three minimal prompt perturbations that should vary in importance: (i) progressive underspecification deleting 10 % of words per step; (ii) lexical flip swapping a pivotal quantifier ("max" to "min"); and (iii) jargon inflation replacing a common noun with an obscure technical synonym. Six frontier models, including three "reasoning-tuned" versions, solve each mutated prompt, and their Python outputs are checked against the original test suites to reveal whether they reused the baseline solution or adapted. Among 11 853 generations we observe a sharp double asymmetry. Models remain correct in 85 % of cases even after 90 % of the prompt is missing, showing over-robustness to underspecification, yet only 54 % react to a single quantifier flip that reverses the task, with reasoning-tuned variants even less sensitive than their bases. Jargon edits lie in between, passing through 56 %. Current LLMs thus blur the line between harmless noise and meaning - changing edits, often treating both as ignorable. Masking salient anchors such as function names can force re - evaluation. We advocate evaluation and training protocols that reward differential sensitivity: stay steady under benign noise but adapt - or refuse - when semantics truly change.

  • 2 authors
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Jul 14, 2025

TESSERA v2: Scaling Pixel-wise Earth Foundation Models

Pixel-wise Earth-observation (EO) foundation models are now achieving state-of-the-art performance via generated spatial embeddings. However, how these models scale and how best to spend a pretraining budget remain poorly understood. We present the largest controlled scaling study for EO to date: 395 training runs on 1,024 GH200 superchips within a fixed pixel-wise Barlow Twins family, each evaluated on 15 downstream tasks. We find that pretraining loss barely predicts downstream performance (|Pearson r| < 0.2), so selecting models by loss wastes a large share of the compute. We also find that, as the training budget grows, the encoder and the data should grow together while the projector stays fixed, which gives a simple rule for allocating compute. Using this rule, we train a family of pixel-wise models (0.5B and 1B, with a 2B model in training) and distill them into compact students for embeddings-as-data deployment. The 21-million-parameter distilled TESSERA v2-1B-M in aggregate outperforms all open and proprietary models tested, some of which are orders of magnitude larger. These students produce Matryoshka representations that are inexpensive to serve: a 16-dimensional prefix keeps 92% of the full 128-dimensional performance at 1/8 of the storage. Upon completion of training we plan to release v2 global embeddings covering 2017-2025. Together, these results give a concrete, empirically grounded recipe for scaling pixel-wise EO foundation models: train large encoders, select by downstream performance, and distil into flexible student models. All code will be released at https://github.com/ucam-eo/tessera.

A Unified Continual Learning Framework with General Parameter-Efficient Tuning

The "pre-training rightarrow downstream adaptation" presents both new opportunities and challenges for Continual Learning (CL). Although the recent state-of-the-art in CL is achieved through Parameter-Efficient-Tuning (PET) adaptation paradigm, only prompt has been explored, limiting its application to Transformers only. In this paper, we position prompting as one instantiation of PET, and propose a unified CL framework with general PET, dubbed as Learning-Accumulation-Ensemble (LAE). PET, e.g., using Adapter, LoRA, or Prefix, can adapt a pre-trained model to downstream tasks with fewer parameters and resources. Given a PET method, our LAE framework incorporates it for CL with three novel designs. 1) Learning: the pre-trained model adapts to the new task by tuning an online PET module, along with our adaptation speed calibration to align different PET modules, 2) Accumulation: the task-specific knowledge learned by the online PET module is accumulated into an offline PET module through momentum update, 3) Ensemble: During inference, we respectively construct two experts with online/offline PET modules (which are favored by the novel/historical tasks) for prediction ensemble. We show that LAE is compatible with a battery of PET methods and gains strong CL capability. For example, LAE with Adaptor PET surpasses the prior state-of-the-art by 1.3% and 3.6% in last-incremental accuracy on CIFAR100 and ImageNet-R datasets, respectively. Code is available at https://github.com/gqk/LAE.

  • 7 authors
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Mar 17, 2023

Exploring Geometry of Blind Spots in Vision Models

Despite the remarkable success of deep neural networks in a myriad of settings, several works have demonstrated their overwhelming sensitivity to near-imperceptible perturbations, known as adversarial attacks. On the other hand, prior works have also observed that deep networks can be under-sensitive, wherein large-magnitude perturbations in input space do not induce appreciable changes to network activations. In this work, we study in detail the phenomenon of under-sensitivity in vision models such as CNNs and Transformers, and present techniques to study the geometry and extent of "equi-confidence" level sets of such networks. We propose a Level Set Traversal algorithm that iteratively explores regions of high confidence with respect to the input space using orthogonal components of the local gradients. Given a source image, we use this algorithm to identify inputs that lie in the same equi-confidence level set as the source image despite being perceptually similar to arbitrary images from other classes. We further observe that the source image is linearly connected by a high-confidence path to these inputs, uncovering a star-like structure for level sets of deep networks. Furthermore, we attempt to identify and estimate the extent of these connected higher-dimensional regions over which the model maintains a high degree of confidence. The code for this project is publicly available at https://github.com/SriramB-98/blindspots-neurips-sub

  • 4 authors
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Oct 30, 2023

Understanding the Effect of Noise in LLM Training Data with Algorithmic Chains of Thought

During both pretraining and fine-tuning, Large Language Models (LLMs) are trained on trillions of tokens of text of widely varying quality. Both phases of training typically involve heuristically filtering out ``low-quality'' or noisy training samples, yet little is known quantitatively about how the type or intensity of noise affects downstream performance. In this work, we study how noise in chain of thought (CoT) impacts task performance in the highly-controlled setting of algorithmically solvable tasks. First, we develop the Traced Integer (TInt) framework to generate highly customizable noised execution traces for any arithmetic function on lists of integers. We then define two types of noise: static noise, a local form of noise which is applied after the CoT trace is computed, and dynamic noise, a global form of noise which propagates errors in the trace as it is computed. We then evaluate the test performance of pretrained models both prompted and fine-tuned on noised datasets with varying levels of dataset contamination and intensity. We find fine-tuned models are extremely robust to high levels of static noise but struggle significantly more with lower levels of dynamic noise. In contrast, few-shot prompted models appear more sensitive to even static noise. We conclude with a discussion of how our findings impact noise filtering best-practices, in particular emphasizing the importance of removing samples containing destructive dynamic noise with global errors.

  • 2 authors
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Feb 6, 2024

On the transmission of floating-point perturbations in flow-dependent filter-width formulations in Large-Eddy Simulation

Heterogeneous high--performance computing architectures expose numerical algorithms to perturbations arising from the non--associativity of floating--point arithmetic. In Large--Eddy Simulation (LES), similar numerical effects may become relevant when they affect the filter--width entering the subgrid scale (SGS) model. This work investigates this mechanism for the least--squares (LSQ) based filter--width formulation, focusing on how floating--point effects are generated, transmitted, and coupled with the resolved flow. We show that, for fixed resolved kinematics, the LSQ filter--width is logarithmically non-expansive but not strictly contractive with respect to perturbations of the mesh metrics. Consequently, small disturbances may be transmitted with little attenuation through strongly directional filter-width responses. To mitigate this sensitivity, we introduce a scalar max--min compression of the directional mesh scales together with a bounded modulation based on the resolved velocity gradient. The resulting formulation reroutes floating--point perturbations through the filter-width operator, improving robustness while preserving the flow--dependent character of the original LSQ construction. The framework is assessed on heterogeneous CPU and GPU architectures for flow past a circular cylinder at Re=3900 and the Taylor--Green vortex at Re=1600. In the former, nearly one--to--one transmission of relative metric disturbances can become relevant when the transmitted perturbations interact with shear-layer transition. By contrast, on orthogonal Taylor--Green vortex grids, the accumulation pathway is structurally absent and no comparable macroscopic response develops. These results suggest floating--point sensitivity matters for LES filter--width formulations in heterogeneous computing environments.

  • 4 authors
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Sep 30

Stop Early, Spend Less: Hidden-State Probes as a Practical Recipe for Streaming Moderation of LLM Outputs

Deploying large language models in user-facing systems requires efficient output safety filtering. Existing approaches typically rely on a separate moderation model applied after generation, which doubles inference cost and only detects violations after generation completes. We observe that the signal needed for moderation is already present in the model hidden states. Based on this, we train lightweight token-level probes that operate directly on internal activations, producing per-token safety scores that can be aggregated for both offline evaluation and online intervention. The probe reuses activations from the generator and requires no additional forward pass, enabling sub millisecond per-token safety checks inside the decoding loop. A probe applied to a single mid layer recovers most decisions of a strong guard model, acting as a low cost surrogate optimized for latency rather than accuracy. In streaming settings, it can halt or modify unsafe outputs before they are fully generated, replacing end of sequence moderation with continuous token level monitoring. Compared to post hoc and streaming guard models, our method achieves orders of magnitude lower compute overhead with minimal latency cost. We also provide a practical deployment recipe, including layer selection, aggregation strategy, probing frequency, and triggering thresholds. Finally, we show that the probe linear component corresponds to a direction in residual space, enabling both detection and activation steering at negligible cost.

  • 3 authors
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Jun 8

Diagnosing Diversity Collapse and Validating Mask-Conditioned Diffusion for Labeled Microtubule Microscopy

Mask-conditioned diffusion models have become standard for generating labeled training data in biomedical imaging. But the tools used to evaluate them were built for a different problem. Standard metrics like FID and KID score images through ImageNet-trained features. Those features do not transfer to microscopy, leaving the metrics poorly calibrated for specialized domains. Even with a domain-appropriate feature space, a single blended number can still hide a real failure: a model can produce visually plausible images that still transfer poorly to downstream tasks. We identify a specific failure mode: Late in training, realism keeps improving while texture diversity collapses. The model settles onto a fixed color palette, converging to a high-similarity, low-diversity state that standard metrics do not penalize. Therefore, we propose a diversity-aware diagnostic in a domain-validated feature space. It combines a realism axis based on inter-similarity to real images with a diversity axis based on intra-similarity among generated samples. This diagnostic selects a checkpoint that domain experts cannot reliably distinguish from real recordings in a forced-choice study. It also yields useful downstream segmentation: a segmenter trained only on synthetically labeled data reaches a median skeletonised IoU comparable to one trained on real data, at lower cross-fold variance, and clearly ahead of the best available public alternative in this domain, a parametric renderer. We also reproduce a data-efficient hyperparameter-transfer experiment from prior work, tuning several foundation segmenters on a small labeled subset and evaluating on real images: transfer is stronger with our data. We release DiffuMT on HuggingFace, including the triplet dataset, code to reproduce the downstream-utility validation, and a standalone diagnostic tool for evaluating mask-conditioned diffusion models.

  • 4 authors
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Oct 6

Evaluation data contamination in LLMs: how do we measure it and (when) does it matter?

Hampering the interpretation of benchmark scores, evaluation data contamination has become a growing concern in the evaluation of LLMs, and an active area of research studies its effects. While evaluation data contamination is easily understood intuitively, it is surprisingly difficult to define precisely which samples should be considered contaminated and, consequently, how it impacts benchmark scores. We propose that these questions should be addressed together and that contamination metrics can be assessed based on whether models benefit from the examples they mark contaminated. We propose a novel analysis method called ConTAM, and show with a large scale survey of existing and novel n-gram based contamination metrics across 13 benchmarks and 7 models from 2 different families that ConTAM can be used to better understand evaluation data contamination and its effects. We find that contamination may have a much larger effect than reported in recent LLM releases and benefits models differently at different scales. We also find that considering only the longest contaminated substring provides a better signal than considering a union of all contaminated substrings, and that doing model and benchmark specific threshold analysis greatly increases the specificity of the results. Lastly, we investigate the impact of hyperparameter choices, finding that, among other things, both using larger values of n and disregarding matches that are infrequent in the pre-training data lead to many false negatives. With ConTAM, we provide a method to empirically ground evaluation data contamination metrics in downstream effects. With our exploration, we shed light on how evaluation data contamination can impact LLMs and provide insight into the considerations important when doing contamination analysis. We end our paper by discussing these in more detail and providing concrete suggestions for future work.

  • 7 authors
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Nov 6, 2024

PerturbBridge: Direct Phenotypic Supervision for Cellular Perturbation Generation

Virtual cell models should capture phenotypes induced by specific perturbations. However, image-based models are typically trained and evaluated to match real-image distributions, which alone does not explicitly prioritize perturbation-specific biological responses. Recent approaches add biological signals through reinforcement-learning post-training or inference-time steering, raising a central question: where should biological response information enter the generative pipeline? We introduce PerturbBridge, a stochastic data-to-data bridge model that directly supervises perturbation-specific phenotypes in predicted perturbed images during training. PerturbBridge jointly optimizes bridge regression and differentiable biological response losses, with biological gradients passing through a frozen image encoder. We further introduce perturbation-response evaluations based on downstream classification and retrieval. Across three microscopy benchmarks for perturbation profiling and subcellular imaging, PerturbBridge surpasses CellFlux in biological fidelity, image quality, and sampling efficiency. On BBBC021, mechanism-of-action classification improves by 5.66 and 7.5 percentage points with morphological and learned visual features, respectively. On JUMP and AllenCell, retrieval Hit@10 and Hit@1 improve by 1.77 and 7.15 percentage points, respectively. On BBBC021 and JUMP, PerturbBridge achieves lower FID with 80% fewer model evaluations than CellFlux. Overall, these results show that directly supervising perturbation responses during training improves phenotypic fidelity while enabling efficient cellular image generation. Code is available at https://github.com/yyc1215lll-creator/PerturbBridge.

  • 6 authors
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Oct 11

FlowBender: Feedback-Aware Training for Self-Correcting Conditional Flows

Conditional diffusion and flow models routinely fail to satisfy the very constraints that define their task. For instance, a depth-conditioned model often produces images whose re-extracted depth disagrees with the input, even though the forward operator--the depth predictor defining the constraint--is available during both training and inference. Existing approaches generally fall into two categories: supervised models that treat the conditioning signal as a static cue and ignore alignment information at inference, and guidance-based methods that consult it through hand-tuned linear updates, typically trading fidelity to the condition against the plausibility of the generated sample. We argue that the fundamental gap in both paradigms is that the model is never trained to utilize its own alignment error. We introduce FlowBender, a closed-loop framework that treats this error as a first-class input, training the network to learn a correction policy conditioned on inference-time feedback. At each step, an unguided look-ahead pass estimates the clean signal, a task-specific deviation is computed via the forward operator, and a refinement pass consumes this signal to produce a corrected velocity. We propose several variants of FlowBender, including a gradient-based formulation for differentiable operators and a zero-order variant for non-differentiable settings such as JPEG compression. For efficient sampling, we introduce a prior-step shortcut that enables closed-loop correction at a minimal additional computational cost. Across image-to-image translation, restoration, and 3D mesh texturing, FlowBender consistently outperforms standard supervised baselines, alignment-loss-augmented training, and state-of-the-art inference-time guidance, improving fidelity and plausibility simultaneously rather than trading them against each other. Project page: https://flow-bender.github.io/

Causal Attribution of Coastal Water Clarity Degradation to Nickel Processing Expansion at the Indonesia Morowali Industrial Park, Sulawesi

Indonesia's nickel ore export ban has driven rapid expansion of smelting and hydrometallurgical processing capacity at the Indonesia Morowali Industrial Park (IMIP), now the world's largest integrated nickel processing complex, on the coast of Central Sulawesi. Whether this industrialization has degraded the adjacent marine environment remains unquantified. We apply Bayesian structural time-series (BSTS) causal inference to a multi-decadal, multi-sensor satellite ocean color record of the diffuse attenuation coefficient at 490 nm, K_d(490), to test for a causal link between IMIP expansion and nearshore turbidity change. A consensus structural breakpoint, a significant posterior causal effect estimated against a Banda Sea counterfactual, and a distribution-free placebo rank test collectively establish that coastal water clarity deteriorated after the transition from initial nickel pig iron production to hyper-expansion of high-pressure acid leaching facilities for battery-grade nickel. Satellite-derived land cover analysis independently corroborates this timing, showing substantial built-area growth and concurrent tree cover loss within the IMIP footprint. The resulting euphotic zone shoaling occurs in oligotrophic waters supporting high marine biodiversity, where even moderate optical degradation may impair coral photosynthesis and compress depth-dependent reef habitat. These findings quantify a marine environmental cost absent from Indonesia's mineral downstreaming policy discourse and demonstrate a transferable, satellite-based quasi-experimental framework for causal impact assessment at coastal industrial sites in data-limited tropical settings.

Reprogramming under constraints: Revisiting efficient and reliable transferability of lottery tickets

In the era of foundation models with huge pre-training budgets, the downstream tasks have been shifted to the narrative of efficient and fast adaptation. For classification-based tasks in the domain of computer vision, the two most efficient approaches have been linear probing (LP) and visual prompting/reprogramming (VP); the former aims to learn a classifier in the form of a linear head on the features extracted by the pre-trained model, while the latter maps the input data to the domain of the source data on which the model was originally pre-trained on. Although extensive studies have demonstrated the differences between LP and VP in terms of downstream performance, we explore the capabilities of the two aforementioned methods via the sparsity axis: (a) Data sparsity: the impact of few-shot adaptation and (b) Model sparsity: the impact of lottery tickets (LT). We demonstrate that LT are not universal reprogrammers, i.e., for certain target datasets, reprogramming an LT yields significantly lower performance than the reprogrammed dense model although their corresponding upstream performance is similar. Further, we demonstrate that the calibration of dense models is always superior to that of their lottery ticket counterparts under both LP and VP regimes. Our empirical study opens a new avenue of research into VP for sparse models and encourages further understanding of the performance beyond the accuracy achieved by VP under constraints of sparsity. Code and logs can be accessed at https://github.com/landskape-ai/Reprogram_LT.

  • 4 authors
·
Aug 28, 2023

Machine Learning Enhanced Multi-Factor Quantitative Trading: A Cross-Sectional Portfolio Optimization Approach with Bias Correction

Rolling-window factor pipelines for Chinese A-share markets contain a subtle but costly flaw: daily price-move limits (+/-10% main-board, +/-20% STAR/ChiNext) render a fraction of closing prices non-executable, yet standard implementations ingest these values before any row-filtering runs. The contaminated aggregates propagate silently through moving averages, correlations, and ranks--a failure mode we term "upstream contamination". On real A-share data it inflates apparent information coefficient by 18% while reducing realised Sharpe by 0.44 points, because the model learns to predict returns it cannot trade. We resolve this with a mask-first design: a Boolean tradability mask is constructed at data load time and threaded through every operator, so that no window ever reads a non-tradable price. Built on this foundation, the system adds (i) a GPU-vectorised 213-factor engine via PyTorch unfold primitives (51x over pandas); (ii) an Adjusted-MSE loss penalising wrong-sign predictions 11x more heavily than magnitude errors; (iii) block-bootstrap GBM augmentation; and (iv) Markowitz-Ledoit-Wolf portfolio optimisation with cvxpy warm-start caching. On a calibrated 3,000-stock synthetic panel the system achieves annualised Sharpe 2.05; on proprietary real A-share data (2022-2024) it achieves Sharpe 1.63. Ablation shows the mask contract is the single largest contributor (+0.44), exceeding any model or loss choice. The full implementation is released under MIT licence at https://github.com/initial-d/ml-quant-trading.

  • 1 authors
·
May 8 1

Passive Sonar Sensor Placement for Undersea Surveillance

Detection of undersea threats is a complex problem of considerable importance for maritime regional surveillance and security. Multistatic sonar systems can provide a means to monitor for underwater threats, where fixed sensors, towed arrays and dipping sonars may be utilised for this purpose. However, it is advantageous to deploy passive sensors to provide a stealthy early warning system. Hence this paper is concerned with determining where a series of passive sonar sensors should be situated in order to provide an initial threat detection capability. In order to facilitate this it is necessary to derive a suitable expression for the probability of threat detection from a passive sensor. This is based upon considerations of the passive sonar equation. It will be demonstrated how the stochastic aspects of this equation may be modelled through appropriate random variables capturing the uncertainty in noise levels. Subsequently this is utilised to produce the system-level probability of threat detection. Since the threat location is also unknown an appropriate statistical model is introduced to account for this uncertainty. This then permits the specification of the probability of detection as a function of sensor locations. Consequently it is then possible to determine optimal sensor placement to maximise the threat detection probability. This provides a new way in which to determine whether a surveillance region is covered adequately by sensors. The methodology will be illustrated through a series of examples utilising passive sonar characteristics sourced from the open literature.

  • 2 authors
·
Mar 5, 2025

Parabolic-elliptic and indirect-direct simplifications in chemotaxis systems driven by indirect signalling

Singular limits for the following indirect signalling chemotaxis system align* \left\{ array{lllllll} \partial_t n = \Delta n - \nabla \cdot (n \nabla c ) & in \Omega\times(0,\infty) , \varepsilon \partial_t c = \Delta c - c + w & in \Omega\times(0,\infty), \varepsilon \partial_t w = \tau \Delta w - w + n & in \Omega\times (0,\infty), \partial_\nu n = \partial_\nu c = \partial_\nu w = 0, &on \partial\Omega\times (0,\infty) %(n,c,w)_{t=0} = (n_0,c_0,w_0) & on \Omega, array \right. align* are investigated. More precisely, we study parabolic-elliptic simplification, or PES, varepsilonto 0^+ with fixed tau>0 up to the critical dimension N=4, and indirect-direct simplification, or IDS, (varepsilon,tau)to (0^+,0^+) up to the critical dimension N=2. These are relevant in biological situations where the signalling process is on a much faster time scale compared to the species diffusion and all interactions. Showing singular limits in critical dimensions is challenging. To deal with the PES, we carefully combine the entropy function, an Adam-type inequality, the regularisation of slow evolution, and an energy equation method to obtain strong convergence in representative spaces. For the IDS, a bootstrap argument concerning the L^p-energy function is devised, which allows us to obtain suitable uniform bounds for the singular limits. Moreover, in both scenarios, we also present the convergence rates, where the effect of the initial layer and the convergence to the critical manifold are also revealed.

  • 4 authors
·
Aug 2, 2025

Intervention anchors and scientific verification in synthetic vascular predictive representations

Complete orthogonal predictive coordinates do not by themselves bind a latent direction to a named intervention. We present a mathematical and synthetic audit motivated by vascular device-vessel suitcordance. Capacity-matched least-squares predictors were exactly equivalent under complete fixed output transforms, whereas an anchor-only observer recovered interpretations only within the span of known perturbation signatures. Six three-dimensional configurations across 64 seeds gave a maximum paired prediction discrepancy of 6.7e-15 but a median untransported edit error of 1.513. Coordinate transport removed that error. Noisy and weak anchors constrained calibration stability, and changing the representation basis required recalibration or verified transport. Across 256 additional fits in dimensions 3-24, prediction equivalence persisted within 4.0e-15. We then evaluated nine deliberate runnable fault classes across 64 seeds. All 576 faulty executions completed, but each violated at least one reconstruction, prediction, delivered-edit or scope contract; all 320 valid control records passed. Repeating a faulty implementation gave exact self-agreement despite error against the separately computed simulator expectation. For one omitted-direction defect, probe coverage followed its analytic law, and rank-aware abstention protected unsupported interpretations. Scalar-noise experiments exposed both missed weak faults and excessive rejection under narrow relative tolerances. These controls provide an executable separation of prediction, semantic support and scientific acceptance. They are synthetic numerical audits, not clinical validation, neural JEPA-Anything replication, agent learning or patient treatment-effect estimation.

  • 7 authors
·
Oct 7

Computer Aided Detection for Pulmonary Embolism Challenge (CAD-PE)

Rationale: Computer aided detection (CAD) algorithms for Pulmonary Embolism (PE) algorithms have been shown to increase radiologists' sensitivity with a small increase in specificity. However, CAD for PE has not been adopted into clinical practice, likely because of the high number of false positives current CAD software produces. Objective: To generate a database of annotated computed tomography pulmonary angiographies, use it to compare the sensitivity and false positive rate of current algorithms and to develop new methods that improve such metrics. Methods: 91 Computed tomography pulmonary angiography scans were annotated by at least one radiologist by segmenting all pulmonary emboli visible on the study. 20 annotated CTPAs were open to the public in the form of a medical image analysis challenge. 20 more were kept for evaluation purposes. 51 were made available post-challenge. 8 submissions, 6 of them novel, were evaluated on the 20 evaluation CTPAs. Performance was measured as per embolus sensitivity vs. false positives per scan curve. Results: The best algorithms achieved a per-embolus sensitivity of 75% at 2 false positives per scan (fps) or of 70% at 1 fps, outperforming the state of the art. Deep learning approaches outperformed traditional machine learning ones, and their performance improved with the number of training cases. Significance: Through this work and challenge we have improved the state-of-the art of computer aided detection algorithms for pulmonary embolism. An open database and an evaluation benchmark for such algorithms have been generated, easing the development of further improvements. Implications on clinical practice will need further research.

  • 20 authors
·
Mar 30, 2020

Predictive Data Selection: The Data That Predicts Is the Data That Teaches

Language model pretraining involves training on extensive corpora, where data quality plays a pivotal role. In this work, we aim to directly estimate the contribution of data during pretraining and select pretraining data in an efficient manner. Specifically, we draw inspiration from recent findings showing that compression efficiency (i.e., the normalized loss) of diverse models on certain text correlates strongly with their downstream performance, when the text domain aligns with the downstream benchmark (Huang et al., 2024). Building on this observation, we hypothesize that data on which model losses are predictive of downstream abilities also contribute effectively to learning. To leverage this insight, we introduce data selection based on data's Predictive strength (Preselect), a lightweight and efficient data selection method that requires training and deploying only a fastText-based scorer. Through comprehensive experiments with 1B and 3B parameter models, we demonstrate that models trained on 30B tokens selected with PreSelect surpasses the performance of a vanilla baseline trained on 300B tokens, achieving a 10x reduction in compute requirements. Furthermore, PreSelect significantly outperforms other competitive data selection baselines, such as DCLM and FineWeb-Edu on a scale of 3B models trained on 100B tokens. We open-source our trained data selection scorer along with the curated datasets at https://github.com/hkust-nlp/PreSelect.

  • 8 authors
·
Mar 2, 2025 2

Exploring Quality and Generalizability in Parameterized Neural Audio Effects

Deep neural networks have shown promise for music audio signal processing applications, often surpassing prior approaches, particularly as end-to-end models in the waveform domain. Yet results to date have tended to be constrained by low sample rates, noise, narrow domains of signal types, and/or lack of parameterized controls (i.e. "knobs"), making their suitability for professional audio engineering workflows still lacking. This work expands on prior research published on modeling nonlinear time-dependent signal processing effects associated with music production by means of a deep neural network, one which includes the ability to emulate the parameterized settings you would see on an analog piece of equipment, with the goal of eventually producing commercially viable, high quality audio, i.e. 44.1 kHz sampling rate at 16-bit resolution. The results in this paper highlight progress in modeling these effects through architecture and optimization changes, towards increasing computational efficiency, lowering signal-to-noise ratio, and extending to a larger variety of nonlinear audio effects. Toward these ends, the strategies employed involved a three-pronged approach: model speed, model accuracy, and model generalizability. Most of the presented methods provide marginal or no increase in output accuracy over the original model, with the exception of dataset manipulation. We found that limiting the audio content of the dataset, for example using datasets of just a single instrument, provided a significant improvement in model accuracy over models trained on more general datasets.

  • 2 authors
·
Jun 9, 2020

Amortizing Causal Sensitivity Analysis via Prior Data-Fitted Networks

Causal sensitivity analysis aims to provide bounds for causal effect estimates in the presence of unobserved confounding. However, existing methods for causal sensitivity analysis are per-instance procedures, meaning that changes to the dataset, causal query, sensitivity level, or treatment require new computation. Here, we instead present an in-context learning approach. Specifically, we propose an amortized approach to causal sensitivity analysis based on prior-data fitted networks. A key challenge is that the sensitivity bounds are not directly available when sampling training data. To address this, we develop a general prior-data construction that is applicable across the class of generalized treatment sensitivity models. Our construction involves a Lagrangian scalarization of the objective to generate training labels for the bounds through a tradeoff between causal effect min/max-imization and sensitivity model violation, which avoids model-specific analytical derivations. We further show that, under standard convexity and linearity conditions, our objective recovers the full Pareto frontier of solutions. Empirically, we demonstrate our amortized approach across various datasets, causal queries, and sensitivity levels, where our approach achieves a test-time computation that is orders of magnitude faster than per-instance methods. To the best of our knowledge, ours is the first foundation model for in-context learning for causal sensitivity analysis.

  • 5 authors
·
May 11

Sign-Constrained Intervention Effects for Domain-Generalizable ICU World Models

Predicting how a patient's vital signs respond to an intervention is a central question in intensive care. World models can do so by learning dynamics as a function of prior actions. However, such models tend to be brittle outside of training data. Clinicians choose drug dosages based on the patient's state, so the association a model learns between dose and outcome runs opposite to the drug's effect, generalizing poorly to out-of-distribution (OOD) dosing practices. Yet, pharmacological information provides the directional effects of different drugs, which are invariant to OOD shifts. To resolve the OOD sensitivity of current ICU world models, we introduce PHYSIO WORLD, which isolates an intervention's effect by evaluating a forward pass twice: once under recorded doses, and once with those doses set to zero. The difference is projected onto pharmacologically admissible effect directions stated by 70 rules over 28 drugs, leaving the magnitude to be learned from data. Across five distribution-shift parameters over cohorts from three intensive-care databases, and against forecasters, counterfactual models, and invariance objectives, PHYSIO WORLD attains the lowest OOD RMSE in every setting, improving on the strongest external baseline by 8-12%, while matching the in-distribution error of its backbone. Reversing the pharmacological directions degrades accuracy below the backbone, and data-mined directions recover almost no gain, indicating the improvement derives from the content of the pharmacological knowledge. The construction may extend to other settings where the sign of an effect is known in advance and its magnitude is confounded by treatment assignment.

  • 5 authors
·
Oct 7

Continual Pre-Training of Large Language Models: How to (re)warm your model?

Large language models (LLMs) are routinely pre-trained on billions of tokens, only to restart the process over again once new data becomes available. A much cheaper and more efficient solution would be to enable the continual pre-training of these models, i.e. updating pre-trained models with new data instead of re-training them from scratch. However, the distribution shift induced by novel data typically results in degraded performance on past data. Taking a step towards efficient continual pre-training, in this work, we examine the effect of different warm-up strategies. Our hypothesis is that the learning rate must be re-increased to improve compute efficiency when training on a new dataset. We study the warmup phase of models pre-trained on the Pile (upstream data, 300B tokens) as we continue to pre-train on SlimPajama (downstream data, 297B tokens), following a linear warmup and cosine decay schedule. We conduct all experiments on the Pythia 410M language model architecture and evaluate performance through validation perplexity. We experiment with different pre-training checkpoints, various maximum learning rates, and various warmup lengths. Our results show that while rewarming models first increases the loss on upstream and downstream data, in the longer run it improves the downstream performance, outperforming models trained from scratchx2013even for a large downstream dataset.

  • 8 authors
·
Aug 7, 2023

A study of a deterministic model for meningitis epidemic

A compartmental deterministic model that allows (1) immunity from two stages of infection and carriage, and (2) disease induced death, is used in studying the dynamics of meningitis epidemic process in a closed population. It allows for difference in the transmission rate of infection to a susceptible by a carrier and an infective. It is generalized to allow a proportion ({\phi}) of those susceptibles infected to progress directly to infectives in stage I. Both models are used in this study. The threshold conditions for the spread of carrier and infectives in stage I are derived for the two models. Sensitivity analysis is performed on the reproductive number derived from the next generation matrix. The case-carrier ratio profile for various parameters and threshold values are shown. So also are the graphs of the total number ever infected as influenced by {\epsilon} and {\phi}. The infection transmission rate (eta), the odds in favor of a carrier, over an infective, in transmitting an infection to a susceptible ({\epsilon}) and the carrier conversion rate ({\phi}) to an infective in stage I, are identified as key parameters that should be subject of attention for any control intervention strategy. The case-carrier ratio profiles provide evidence of a critical case-carrier ratio attained before the number of reported cases grows to an epidemic level. They also provide visual evidence of epidemiological context, in this case, epidemic incidence (in later part of dry season) and endemic incidence (during rainy season). Results from total proportion ever infected suggest that the model, in which {\phi}=0 obtained, can adequately represent, in essence, the generalized model for this study.

  • 2 authors
·
Mar 31, 2023

ViTally Consistent: Scaling Biological Representation Learning for Cell Microscopy

Large-scale cell microscopy screens are used in drug discovery and molecular biology research to study the effects of millions of chemical and genetic perturbations on cells. To use these images in downstream analysis, we need models that can map each image into a feature space that represents diverse biological phenotypes consistently, in the sense that perturbations with similar biological effects have similar representations. In this work, we present the largest foundation model for cell microscopy data to date, a new 1.9 billion-parameter ViT-G/8 MAE trained on over 8 billion microscopy image crops. Compared to a previous published ViT-L/8 MAE, our new model achieves a 60% improvement in linear separability of genetic perturbations and obtains the best overall performance on whole-genome biological relationship recall and replicate consistency benchmarks. Beyond scaling, we developed two key methods that improve performance: (1) training on a curated and diverse dataset; and, (2) using biologically motivated linear probing tasks to search across each transformer block for the best candidate representation of whole-genome screens. We find that many self-supervised vision transformers, pretrained on either natural or microscopy images, yield significantly more biologically meaningful representations of microscopy images in their intermediate blocks than in their typically used final blocks. More broadly, our approach and results provide insights toward a general strategy for successfully building foundation models for large-scale biological data.

  • 13 authors
·
Nov 4, 2024

NormGuard: Reward-Preserving Norm Constraints in Flow-Matching Reinforcement Learning

Reinforcement learning (RL) post-training improves the reward alignment of flow-based generators, but often degrades perceptual quality in ways that are not captured by the reward proxy. We identify a simple structural signature of this drift: across three post-training methods (NFT, AWM, DPO), RL fine-tuning inflates the per-step velocity norm |v_θ| by 5% to 15% relative to the reference. A form of norm inflation has been studied in classifier-free guidance (CFG), where rescaling the velocity back to a reference norm at inference time can mitigate the resulting artifacts. However, this inference-time correction does not transfer cleanly to RL: rescaling v_θ to match |v_{ref}| at inference time neither improves reward nor fixes the quality degradation, because the inflation is co-adapted into the model weights. Furthermore, an adjoint sensitivity analysis shows that velocity magnitude rescaling carries no coherent first-order reward signal at the batch level, indicating that suppressing norm inflation is unlikely to remove a consistently reward-carrying component. Since inference-time renormalization fails while norm suppression carries no reward cost, training-time intervention is the appropriate strategy. Together, these findings motivate \methodname, a hinge penalty that activates only when |v_θ| exceeds |v_{ref}| and composes additively with any velocity-local base loss. Across two base models, three post-training methods, and two reward proxies, \methodname consistently improves MLLM-judged image quality and forensic realism while preserving reward, with gains that amplify under few-step inference and are not explained by early stopping.

HKUST HKUST
·
Jun 25 2

MEG-GPT: A transformer-based foundation model for magnetoencephalography data

Modelling the complex spatiotemporal patterns of large-scale brain dynamics is crucial for neuroscience, but traditional methods fail to capture the rich structure in modalities such as magnetoencephalography (MEG). Recent advances in deep learning have enabled significant progress in other domains, such as language and vision, by using foundation models at scale. Here, we introduce MEG-GPT, a transformer based foundation model that uses time-attention and next time-point prediction. To facilitate this, we also introduce a novel data-driven tokeniser for continuous MEG data, which preserves the high temporal resolution of continuous MEG signals without lossy transformations. We trained MEG-GPT on tokenised brain region time-courses extracted from a large-scale MEG dataset (N=612, eyes-closed rest, Cam-CAN data), and show that the learnt model can generate data with realistic spatio-spectral properties, including transient events and population variability. Critically, it performs well in downstream decoding tasks, improving downstream supervised prediction task, showing improved zero-shot generalisation across sessions (improving accuracy from 0.54 to 0.59) and subjects (improving accuracy from 0.41 to 0.49) compared to a baseline methods. Furthermore, we show the model can be efficiently fine-tuned on a smaller labelled dataset to boost performance in cross-subject decoding scenarios. This work establishes a powerful foundation model for electrophysiological data, paving the way for applications in computational neuroscience and neural decoding.

  • 5 authors
·
Oct 20, 2025

What Will This Copper Look Like Later? Forecasting Surface Appearance and Rendering It as a PBR Material

Digital design requires predicting how a metal surface will look later in its oxidation; this paper presents such a pipeline for copper. Given a fixed-camera observation, the system forecasts appearance 10 accelerated units ahead and converts it into the albedo, normal, roughness and metallic maps a renderer consumes. Forecasting is evaluated as an authoring tool would use it, on a copper specimen the system has not observed: an entire recording is held out, so training and checkpoint selection use one specimen and the test set is the whole of a second, recorded on a different day and condition. Under this protocol a learned spatio-temporal model with a monotone oxidation state, the most accurate forecaster within a single recording, is less accurate than copying the last observed frame on an unseen specimen, in both directions, as are three further trained architectures. The only forecaster that transfers is a closed-form global color extrapolation with no trained parameters, improving on copy-last-frame by 13.4% and 50.6%, with a margin that increases with horizon to +16.7% and +55.5% at t+10. Two controls qualify this: correcting every frame for the photometric drift measured on a non-oxidizing reference region leaves both margins intact, ruling out uncontrolled exposure as their source, and a moving-block bootstrap over the 6 independent windows each recording contains separates the larger margin from zero but leaves the smaller one not individually significant. The mechanism is measured: a learned susceptibility map encodes where corrosion begins on the training specimen and misleads on a new one, whereas the global color trajectory is what specimens share. The pipeline therefore deploys the closed-form forecaster for unseen specimens and the learned model only for continuing one already observed. Code, splits, protocol and leakage audit are released.

  • 4 authors
·
Aug 27

Forecasting Thermoacoustic Instabilities in Liquid Propellant Rocket Engines Using Multimodal Bayesian Deep Learning

The 100 MW cryogenic liquid oxygen/hydrogen multi-injector combustor BKD operated by the DLR Institute of Space Propulsion is a research platform that allows the study of thermoacoustic instabilities under realistic conditions, representative of small upper stage rocket engines. We use data from BKD experimental campaigns in which the static chamber pressure and fuel-oxidizer ratio are varied such that the first tangential mode of the combustor is excited under some conditions. We train an autoregressive Bayesian neural network model to forecast the amplitude of the dynamic pressure time series, inputting multiple sensor measurements (injector pressure/ temperature measurements, static chamber pressure, high-frequency dynamic pressure measurements, high-frequency OH* chemiluminescence measurements) and future flow rate control signals. The Bayesian nature of our algorithms allows us to work with a dataset whose size is restricted by the expense of each experimental run, without making overconfident extrapolations. We find that the networks are able to accurately forecast the evolution of the pressure amplitude and anticipate instability events on unseen experimental runs 500 milliseconds in advance. We compare the predictive accuracy of multiple models using different combinations of sensor inputs. We find that the high-frequency dynamic pressure signal is particularly informative. We also use the technique of integrated gradients to interpret the influence of different sensor inputs on the model prediction. The negative log-likelihood of data points in the test dataset indicates that predictive uncertainties are well-characterized by our Bayesian model and simulating a sensor failure event results as expected in a dramatic increase in the epistemic component of the uncertainty.

  • 5 authors
·
Jul 1, 2021

Fast and Faithful: Principled Conditional Flow Matching for Inverse Problems

Flow matching approaches to imaging inverse problems commonly incorporate measurements in two ways. Conditioning-based approaches supply measurement-derived information as a network input, often through concatenation, while inference-guided approaches combine an unconditional velocity field with a separate data-consistency update. In these common formulations, the forward model is not explicitly enforced within the learned conditional velocity field. We propose a principled parametrization of the measurement-conditional velocity field to solve inverse problems. Under linear interpolation, we express the conditional velocity v(x_t,t,y) in terms of the posterior mean E[x_1 | x_t,y], and characterize that mean as the unique minimizer of a variational objective whose data-consistency term is explicit. We further prove that the velocity field defines a probability flow from the source distribution to the measurement-conditioned posterior. Splitting the variational objective yields a conditional velocity parameterization with operator-dependent data-consistency updates, which we train end-to-end under the flow-matching objective, with no additional guidance at inference. Our method achieves state-of-the-art PSNR with 50times fewer function evaluations than the strongest flow baseline. Varying the sampling steps provides test-time control over the distortion-perception trade-off without retraining.

  • 4 authors
·
Sep 10

Antidote: Post-fine-tuning Safety Alignment for Large Language Models against Harmful Fine-tuning

Safety aligned Large Language Models (LLMs) are vulnerable to harmful fine-tuning attacks qi2023fine-- a few harmful data mixed in the fine-tuning dataset can break the LLMs's safety alignment. Existing mitigation strategies include alignment stage solutions huang2024vaccine, rosati2024representation and fine-tuning stage solutions huang2024lazy,mukhoti2023fine. However, our evaluation shows that both categories of defenses fail when some specific training hyper-parameters are chosen -- a large learning rate or a large number of training epochs in the fine-tuning stage can easily invalidate the defense, which however, is necessary to guarantee finetune performance. To this end, we propose Antidote, a post-fine-tuning stage solution, which remains \textit{agnostic to the training hyper-parameters in the fine-tuning stage}. Antidote relies on the philosophy that by removing the harmful parameters, the harmful model can be recovered from the harmful behaviors, regardless of how those harmful parameters are formed in the fine-tuning stage. With this philosophy, we introduce a one-shot pruning stage after harmful fine-tuning to remove the harmful weights that are responsible for the generation of harmful content. Despite its embarrassing simplicity, empirical results show that Antidote can reduce harmful score while maintaining accuracy on downstream tasks.Our project page is at https://huangtiansheng.github.io/Antidote_gh_page/

  • 5 authors
·
Aug 18, 2024

Correcting Neural Operator Spectral Bias via Diffusion Posterior Sampling with Sparse Observations

Neural operator surrogates (NO) approximate PDE solutions orders of magnitude faster than numerical solvers, but suffer from spectral bias: high-frequency content is systematically attenuated, limiting reliability where fine-scale structure matters. Sparse sensor measurements of the field are often available too, offering pointwise accuracy without spectral distortion but covering only a small fraction of the domain. We address this by treating NO predictions as auxiliary observations in a diffusion posterior sampling framework. Our method, FreqNO-DPS (https://github.com/niccoloperrone/FreqNO-DPS), combines an unconditional score-based diffusion prior, trained on high-fidelity simulations, with diffusion posterior sampling (DPS) conditioned on sparse observations and guided by a frozen neural operator. Naive integration reintroduces the surrogate's spectral bias; we resolve this with a closed-form, spectrally shaped guidance score that weights the surrogate by its frequency-dependent accuracy and needs no denoiser backpropagation. A distribution-free analysis bounds the approximation error across the frequency-diffusion-time plane and shows the guidance's frequency dependence is preserved regardless of distributional assumptions. On 3D elastic wavefield prediction at 5% and 2% sensor coverage, the method reaches near-zero spectral bias across all bands, where both the surrogate and sensor-only DPS show systematic high-frequency attenuation. Isotropic guidance, the natural baseline, improves pointwise accuracy but carries the bias into the posterior nearly intact, confirming that frequency-dependent calibration is essential, not merely beneficial. The framework needs only paired surrogate/reference data and exploits no problem-specific structure beyond the residual's approximate spectral diagonality, verifiable for new surrogates via the coherence diagnostic we provide.

  • 4 authors
·
Jun 1

The Life Cycle of a Massive Activation: Stochastic Birth, Weight-Decay-Driven Growth, and Competitive Consolidation

Massive activations, residual-stream coordinates with magnitudes far larger than typical activations, are associated with attention sinks in transformers, but how their scale is regulated during training remains incompletely understood. Combining training-trajectory analyses and controlled interventions, we trace their emergence, growth, and consolidation. Sink-carrying channels vary across random seeds but stabilize early within each run. Over longer training, surrounding channels erode and the sink concentrates onto a few redundant carriers. Across ablations, gradient attenuation follows the sink token's collective root-mean-square magnitude rather than any single channel, making collective scale central to understanding their effects. Our central result is that weight decay causally controls the turnover of global activation scale. In controlled continuations, removing decay near the peak allows this scale to keep rising, whereas retaining it produces decline even at constant learning rate. We develop a balance model for the rise and peak of massive-activation magnitude, in which AdamW-preconditioned growth opposes weight decay. Sweeping the decay coefficient λ shifts peak timing approximately log-linearly and yields peak magnitudes scaling approximately as λ^{-1/2}, consistent with this balance. Optimizer measurements further show that preconditioning sustains the large-channel cohort against decay even when raw maintaining forces are too small to do so. Together, these findings connect the observed life cycle to scale-regulating training dynamics and establish weight decay as a training-time lever on activation magnitude.

Poseidon: Efficient Foundation Models for PDEs

We introduce Poseidon, a foundation model for learning the solution operators of PDEs. It is based on a multiscale operator transformer, with time-conditioned layer norms that enable continuous-in-time evaluations. A novel training strategy leveraging the semi-group property of time-dependent PDEs to allow for significant scaling-up of the training data is also proposed. Poseidon is pretrained on a diverse, large scale dataset for the governing equations of fluid dynamics. It is then evaluated on a suite of 15 challenging downstream tasks that include a wide variety of PDE types and operators. We show that Poseidon exhibits excellent performance across the board by outperforming baselines significantly, both in terms of sample efficiency and accuracy. Poseidon also generalizes very well to new physics that is not seen during pretraining. Moreover, Poseidon scales with respect to model and data size, both for pretraining and for downstream tasks. Taken together, our results showcase the surprising ability of Poseidon to learn effective representations from a very small set of PDEs during pretraining in order to generalize well to unseen and unrelated PDEs downstream, demonstrating its potential as an effective, general purpose PDE foundation model. Finally, the Poseidon model as well as underlying pretraining and downstream datasets are open sourced, with code being available at https://github.com/camlab-ethz/poseidon and pretrained models and datasets at https://huggingface.co/camlab-ethz.

  • 7 authors
·
May 29, 2024