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Search papers from 30+ top conferences, including NeurIPS, ICLR, ICML, CVPR, ACL and AAAI. Filter by keyword, then open any paper for its abstract, authors and links.

arXiv

Breaking Diversity Collapse in Spiking Pseudo-Ensembles for Efficient OOD Detection in Remote Sensing

Srinivas Anumasa, Rushi Shah, Qiran Zou, Dianbo Liu

Spiking Neural Networks (SNNs) are attractive for resource-constrained remote-sensing systems, but reliable out-of-distribution (OOD) detection remains challenging. Deep ensembles provide strong predictive uncertainty, yet require multiple complete models and backbone evaluations. We propose an efficient spiking pseudo-ensemble that attaches multiple lightweight classification heads to a frozen SNN backbone. Naively training these heads with cross-entropy can lead to diversity collapse, where independently parameterized heads may produce correlated predictions. To address this, we introduce an agree--disagree objective that preserves correct predictions on clean in-distribution samples while encouraging diversity on structured, uncertainty-inducing transformations of the same inputs. This provides a diversity-promoting training signal without requiring external OOD data. Experiments with Spikformer and ResNet19-SNN on EuroSAT demonstrate consistent improvements over conventionally trained pseudo-ensembles. Using three backbones with five heads each matches or improves upon a five-model deep ensemble on UCM and AID, while requiring approximately 38% fewer parameters and 40% fewer backbone evaluations. These results show that explicit diversity promotion can recover useful ensemble-style uncertainty at substantially lower deployment cost.

arXiv

When Collaboration Becomes a Trigger: Collective Evidence-Threshold Backdoors in Multi-Agent Systems

Jia-Hao Xiao, Lei Feng, Min-Ling Zhang

LLM-based multi-agent systems (MAS) extend LLM capabilities through iterative communication and shared contexts. However, this collaboration introduces a vulnerability: backdoor behavior can be activated when peer evidence reaches a hidden threshold, rather than being determined by any single message. We introduce a collective evidence-threshold backdoor paradigm for MAS and Boundary-Conditioned Backdoor Injection (BCBI), which constructs counterfactual boundary pairs to separate benign behavior before the threshold from the adversarial objective after it, and learns latent progression aligned with evidence. To mitigate this threat, we propose LAtent Transition Test-time Evaluation (LATTE), a clean-only latent-transition defense that learns benign communication dynamics and quarantines anomalous agent updates before their responses propagate. Across several benchmarks, BCBI yields selective activation with little premature activation; without knowing the attack target or trigger, LATTE limits propagation with minimal disruption.

arXiv

Characterizing Bias in Post-Bandit Inference under Index Algorithms

Lisu Wang, yilun chen, Jiaqi Lu

Bandit algorithms generate data for downstream inference, but adaptive sampling biases post-bandit sample means. We analyze this bias for stable index algorithms, including UCB1 and its generalizations, and derive sharp leading-order expressions for the sample-mean bias and expected $Z$-statistic. Our characterization reveals the algorithmic origin of bias through a key index-function-dependent quantity, which we term effective exploration rate. For example, under UCB1, the effective exploration rate is of order $\sqrt{\log T}$, and the standardized bias of any arm (that is not uniquely optimal) decays at the extremely slow rate $1/\sqrt{\log T}$. We also show how the choice of the index function affects both regret and bias, which reveals a regret-bias trade-off: more exploratory algorithm reduces bias but increases regret. Our sharp characterization for bias uses a novel empirical fluid approximation of the algorithm's sampling dynamics, which may be of independent interest.

arXiv

What Could the Agent See at 19:05? Generating Temporal Enterprise Scenarios from Real Research and Replaying Them to Evaluate Agents

Tezan Sahu, Himani Arora

Enterprise AI agents act across many apps whose data changes continuously, so an answer is correct only relative to what data existed and who could see it at the moment it was asked. Offline evaluation today grades against a single static snapshot, effectively the end of the episode. So, it can only evaluate one situation, the final one, even though every earlier moment of the episode is a different situation that invites its own realistic questions with its own correct answers. Recreating each of those moments as a separate snapshot would mean re-provisioning a whole tenant per instant, which is prohibitively costly; and even a single snapshot leaks future state hidden inside records and cannot represent the multi-app, time-ordered way real work happens. Our system closes two gaps at once: it generates a realistic, persona-driven, temporally-evolving enterprise world from real research, and replays that world at any chosen moment to evaluate any pluggable agent. A schema-inferred temporal description drives a deterministic-plus-LLM rebuild of each record's past state; because the queryable moments are finite, all rebuilds are precomputed into a compact difference cache, making evaluation a fast, reproducible lookup with no model in the path. We describe the design, an architecture spanning both flows, and early experience evaluating enterprise agents.

arXiv

On the Limits of Machine-Learned Ranking for Modern Microarchitectural Policies

Yanxin Zhang, Shayne Wadle, Yuxuan Xiong, Zheyu Fu, Trivikram Krishnamurthy, Karu Sankaralingam

Machine-learning predictors estimate processor performance far faster than cycle-level simulation. For design-space exploration, however, the valuable test is not merely reproducing the usual hardware ordering, but identifying how different hardware configurations rank on individual program phases. We evaluate four ML-predictors in two design regimes: \emph{Structural Parameters} (SP), varying hardware resources such as issue width, ROB size, and cache capacity; and \emph{Behavioral Policies} (BP), varying prefetching and replacement algorithms. In the SP regime, aggregate ranking is strong, yet counter-intuitive windows(CIW)---where the configuration expected to be slower is faster---constitute $22.4\%$ of non-tied windows across five pairs with a clear architectural prior. CIW match across these pairs is only $23.3$--$39.9\%$; every point estimate is below the $50\%$ random strict-ordering reference. The BP regime presents a different failure: ground-truth ties cover $37.8\%$ of pair-windows, most strict pairs have margins of only a few cycles, and no model family reliably beats a feature-free majority baseline. NeuroScalar and SimNet fall below that baseline, Concorde is statistically tied with it, and the best selected OneDSE head improves by only $2.1$ percentage points. Accuracy rises mainly at large margins. We further show that this failure is not a matter of model capacity: an information-theoretic analysis reveals that when ranking outcomes depend on hidden microarchitectural state absent from the instruction stream, no trace-based predictor can exceed the Bayes accuracy determined by observable inputs alone. Thus high cycle or aggregate ranking accuracy can reflect mastery of easy, high-margin cases while missing the local reversals that carry the most architectural insight and for which cycle-level simulation remains indispensable.

arXiv

Using Lower-Bound Representations for Trajectory Similarity Learning

Liwei Deng, Haotian Meng, Yupu Zhang, Yan Zhao, Torben Bach Pedersen, Kai Zheng, Christian S. Jensen

Trajectory similarity learning is fundamental to efficient trajectory retrieval under complex distance measures. Existing learning-based methods typically rely on embeddings trained to approximate trajectory distances or rankings, but they often lack guarantees with respect to the original distances, exhibit unstable performance across distance measures, and incur substantial training costs. We revisit trajectory similarity learning from a lower-bound representation perspective and propose LB-TrajRep, a unified lower-bound representation framework independent of deep neural embeddings. This framework constructs single-vector representations from a set of lower-bound components, enabling admissible and interpretable lower bounds for multiple classical trajectory distances, including Dynamic Time Warping (DTW), Hausdorff distance, and Discrete Fréchet Distance (DFD). Within this framework, we instantiate point-pivot components, which naturally support both metric and non-metric distances and remain compatible with standard vector-based retrieval pipelines. To improve ranking quality, we develop two data-driven pivot selection strategies that explicitly optimize lower-bound tightness and prioritize hard near-neighbor trajectory pairs, respectively. Extensive experiments on real-world trajectory datasets show that the proposed lower-bound representations are able to consistently outperform state-of-the-art neural trajectory embeddings across diverse distance measures, improving top-$k$ ranking accuracy by up to 20\%--60\% on the Hausdorff distance and DFD and by 15\%--40\% on DTW.

arXiv

The Fourth Quadrant: A Stylized View of Benign Misfitting

Gireeja Ranade, Anant Sahai

Training error is what we can observe on a training set; test error is the quantity we actually care about. We study linear regression with squared-error in a deterministic $(d+1)$-dimensional single-spike model. Each stylized training vector has the same informative spike coordinate, of amplitude $\sqrtγ$ with $γ>1$. The remaining directions are nuisance, and the nuisance components of distinct training vectors all have equal norm and are mutually orthogonal. The training labels are all $1$. Fresh test points are drawn from $\vec{x}_{\rm test} \sim \mathcal{N}(\vec{0},\operatorname{diag}(γ,1,\ldots,1))$, with the noise-free test labels being the normalized spike coordinate $x_{\rm test}[1]/\sqrtγ$. We focus on linear predictors in the span of the training vectors, the class naturally reached by zero-initialized linear gradient methods. We exhibit a range of training-set sizes $n$ in which every span predictor that generalizes well must fit the training data \emph{worse} than the zero predictor. We call this regime \emph{benign misfitting}, or the fourth quadrant. The best span predictor begins to generalize when $n\gg d/γ^2$, while interpolation does not generalize until the later threshold $n\gg d/γ$. In the window $d/γ^2 \ll n \ll d/γ$, useful prediction within the linear span lies beyond interpolation: predictions on the training points overshoot the labels. We show that one-pass stochastic gradient descent (SGD), with a large constant learning rate, reaches small test error throughout this window---matching the best span predictor up to a logarithmic factor. We also verify directly that it indeed has \emph{large} empirical training error (despite the descent premise in its name). Finally, we show that the unavoidable nuisance component responsible for the training misfit also controls the predictor's adversarial sensitivity.

arXiv

Caliber: Cross-Architecture Extraction-Cost Control for Score-Returning APIs

Chi Wang, Hanwen Wang, Yu Xia, Zihan Wang, Guangdong Bai

We present Caliber, an output-perturbation defense against model extraction that formulates noise selection as a calibration problem: how much the defense degrades the supervision signal used to train a surrogate, and the provable per-input query cost of recovering the clean logits. To defend against an attacker that uses returned scores for knowledge distillation, Caliber adds independent and identically distributed Gaussian noise to the internal logits. We establish two properties of the resulting perturbed predictions. Monotone agreement degradation: When the clean logits have a unique maximizer, agreement with the clean prediction decreases strictly with the noise scale, so every target in $(1/K,1)$ corresponds to a unique positive scale; task accuracy is bounded by computable lower and upper envelopes. Per-input recovery cost: We derive a closed-form minimax lower bound on the repeated queries needed to recover the clean logits for a fixed input. Caliber normalizes noise variance by the squared median top-two logit margin and fits the resulting noise-utility relationship with a logistic curve, either per model or shared within a task. Across more than thirty model-dataset combinations, per-model calibration achieves mean absolute relative errors of 0.6-1.4%. End-to-end experiments show that surrogate performance generally tracks the configured degradation, while fixed-input averaging follows the expected variance reduction.

arXiv

Fused Bayesian Flow Networks for Dual-Target Molecular Design

Jingyuan Zhou, Shikui Tu, Lei Xu

Dual-target drug design aims to generate 3D molecules that can simultaneously interact with two target proteins, offering a promising route for discovering polypharmacological compounds against complex diseases. While recent generative models have shown encouraging performance in single-target drug design, existing dual-target approaches either focus on sequence generation or introduce an additional predictive drift term into the diffusion-based generative trajectory, which limits their ability to fully integrate feature information from both targets. We propose FusedBFN, a fused Bayesian flow network (BFN) for dual-target molecular design. FusedBFN formulates dual-target generation as distribution fusion in a unified continuous parameter space and employs a product-of-experts formulation to incorporate dual-target information throughout the generative process. To address the scarcity of dual-target structural data, we leverage a pretrained target-aware BFN model as the shared backbone. We further introduce a chemically aware prior-based alignment method and a prior-free pocket alignment strategy to construct aligned dual-target contexts. Extensive experiments demonstrate that FusedBFN generates molecules with strong binding affinity toward dual targets while maintaining favorable molecular properties.

arXiv

Hierarchical Solomonoff Induction: An Unbounded Machine Learning Model

Nathan Young

Solomonoff Induction, or SolInd, provides an ideal unbounded model of a priori sequence prediction but cannot naturally describe extrapolation from a given training dataset, as performed by Large Language Models. We apply de Finetti's theorem on exchangeable distributions to SolInd to produce what we call Hierarchical Solomonoff Induction, or HSI, which maintains a hyperprior over all Solomonoff priors that can be conditioned on previously observed sequences. We extend Wood et al.'s proof that universal mixtures of semimeasures are equivalent to SolInd to show that universal mixtures of these mixtures are also equivalent, proving that HSI=SolInd. We also prove that HSI's excess error on any distribution, compared to its true generator, is bounded by that generator's complexity in the hyperprior. This result is directly comparable to SolInd's prediction error being bounded by the Kolmogorov complexity of the sequence being predicted, and forces HSI's average excess error to converge to 0 as a dataset grows, leading to optimal prediction in the limit. We claim that HSI is an ideal unbounded model of sequence prediction given a dataset in the same way that SolInd is ideal over individual sequences.

arXiv

Adaptive Perturbation Selection for Contrastive Audio Decoding

Aaron Isidore Grace, Zhouyuan Huo, Weiran Wang

Large audio-language models (LALMs) frequently hallucinate by overriding acoustic evidence with language priors. While contrastive decoding (CD) offers training-free mitigation, existing methods rely on blunt perturbations like masking or noise, leaving structured audio transformations unexplored. We explore this design space by evaluating a diverse library of targeted audio perturbations and adaptively selecting the optimal negative branch for each task and example. First, we improve upon earlier prompt engineering by showing that a simple binary yes/no constraint reduces the model's tendency to falsely confirm absent audio features. Second, evaluating our library across temporal, spectral, frequency, and amplitude domains reveals that optimal transformations are highly task-dependent; for instance, reversing the audio array disrupts temporal coherence, raising accuracy on the temporal order task from 74.7% to 81.4%. Finally, we trained a light-weight perturbation selector on model hidden states to dynamically route negative branches, yielding an additional +4.3% gain on the existence task.

arXiv

A Category Theory Account of AI Identity

Andrea Ferrario

Artificial intelligence (AI) systems are routinely modified after deployment through retraining and changes in their environments. These transformations raise a metaphysical question: under what conditions does an AI system remain the same system over time or across deployments? Earlier work formulates synchronic and diachronic identity propositionally, by relating identity within a fixed AI system type to equality of trustworthiness levels. Such criteria specify when identity statements are true, but leave implicit the structure of the states compared, the transformations connecting them, and the temporal organization of persistence. We develop a category-theoretic formalization of AI identity. An AI system type is specified by a datum consisting of a techno-function, a trustworthiness profile, and a trustworthiness-level function. Profile-relative states are connected by admissible lifecycle paths, which are restricted to trustworthiness-level-preserving transformations and quotiented to obtain a reachability category. Temporally admissible functors represent AI system histories, while time-synchronous natural transformations compare realized histories. The formalization yields two categorical interpretations of the earlier AI identity criteria. A weak interpretation recovers identity as equality of trustworthiness level. A strong interpretation requires mutual trustworthiness-preserving reachability, expressed through state isomorphism or natural isomorphism of realized histories. Category theory therefore replaces a single AI identity relation with a structured hierarchy of diachronic and synchronic criteria. The resulting framework identifies identity-related preconditions for transferring responsible-AI claims, evidence, and governance procedures across versions or deployments, without treating categorical identity as sufficient by itself for such transfer.

arXiv

Who Belongs in the Eval Set? A Capability-Taxonomy-Driven Pipeline for Curating Regression Eval Sets in Agent-Extensibility Platforms

Tezan Sahu, Aritra Das, Pankaj Mittal, Sudipta Das

Platform teams hosting agent-extensibility surfaces face a regression-economics paradox: every onboarding customer ships an evaluation set tuned to their domain, but the platform's regression set must live under a hard query-count ceiling bounded by release cadence. To our knowledge, no published industrial pipeline addresses this platform-side curation problem: existing evaluation frameworks are customer-side, and benchmark-compression work treats benchmarks as fixed pools rather than streams of incoming sets. We describe a capability-taxonomy-driven curation pipeline applied to declarative agents with custom actions in Microsoft 365 Copilot. It takes an agent specification and a customer's eval set as input, projects each query into a platform-owned capability taxonomy, and outputs per-query decisions (admit, drop, swap, or human review), under the philosophy that a healthy regression set is the minimal set of queries capturing the maximal spread of capability signatures -- distinct combinations of capabilities a query exercises together. Three components instantiate this: a classifier producing per-(query, capability) verdicts via a hybrid of deterministic specification-based extraction and large-language-model (LLM) semantic inference; an Invocation Quality (IQ) rater scoring how thoroughly a query exercises each capability, so a new query sharing a signature with an existing entry can still be recognized as a better test and displace it; and a consolidator comparing incoming queries against the regression set on coverage and quality through a rule-based decision cascade, backed by a conservative curator that only suggests evictions. The mechanism is taxonomy-agnostic and applies to any regression eval-set curation problem with a typed capability taxonomy, including taxonomies that evolve in response to the very evidence the pipeline surfaces.

arXiv

Model-Agnostic FDR Control via Group Gaussian Mirror and Permutation SHAP

Jiaan Han, Junxiao Chen, Yanzhe Fu

Most FDR-controlled feature selection methods are designed for coordinate-wise hypotheses, where each feature has a single weight or importance score. This abstraction fails in sequential and grouped models, where one original feature is represented by a block of sub-features, such as lags, recurrent states, or attention-based interactions. We propose a grouped-feature FDR control framework for such settings. For grouped linear models, we construct null-symmetric block-level mirror statistics with matrix-valued perturbations. For neural sequential models, we combine Permutation SHAP derivatives as model-agnostic block-level importance scores with kernel-based dependence measure. The framework is model-agnostic across network architectures, does not require specifying the covariate distribution, and reduces to Gaussian Mirror or Neural Gaussian Mirror when the block size is one. We prove FDR control for low- and high-dimensional grouped linear models and asymptotic symmetry of smoothed Permutation SHAP derivatives under fixed fitted nonlinear models. Experiments on simulated and real-world datasets show reliable FDR control and improved power under correlated grouped-feature signals.

arXiv

Beyond Gene Reconstruction: Learning Cell Representations through Complementary Transcriptomic Views

Jiaqi Xiong, Yuntao hu, Yu Zheng, Yifei Shi, Xinyue Guo, Jiaxin Qi

The rapid growth of single-cell transcriptomic data has enabled the development of foundation models pretrained primarily by reconstructing masked expression values. This objective encourages these models to learn gene dependencies but does not directly optimize whole-cell representations, which are essential for many downstream tasks. To bridge this gap, we propose a contrastive pretraining framework that learns cell representations through complementary transcriptomic views. Since standard contrastive learning is not readily applicable to single-cell pretraining, we introduce specific adaptations along three dimensions --- co-expression-guided gene partitioning, expression-aware contrast-set construction, and competence-gated contrastive onset. Specifically, we first construct two complementary views of each cell by partitioning its genes according to their co-expression structure. Then, to prevent the model from using gene-set identity as a shortcut, we construct hard negatives by permuting expression values while keeping gene identities unchanged. Finally, we introduce a competence-aware controller to determine how the contrastive objective is applied. Experiments on cell-type annotation and gene regulatory network inference demonstrate competitive transfer under the evaluated protocols. In the six-network GRN evaluation, our method records the highest mean AUROC and AUPRC point estimates among the compared variants, while the highest-scoring variant differs across individual networks. These results establish complementary-view contrastive learning as an effective direction for single-cell pretraining beyond gene reconstruction.

arXiv

The Governance Inversion Hypothesis: Why More AI Regulation May Produce Less Organisational Control

Victor Frimpong

This paper introduces the Governance Inversion Hypothesis (GIH) to explain a growing paradox in artificial intelligence (AI) governance: under conditions of increasing regulatory expansion and technological complexity, organisations may become more formally governed while simultaneously experiencing a decline in operational control over AI systems. Existing AI governance frameworks generally assume that stronger regulation improves accountability, oversight, and organisational control. This paper challenges that assumption by arguing that governance formalisation itself may contribute to the erosion of control in AI-intensive environments. Drawing on institutional theory, organisational governance research, accountability scholarship, and emerging AI governance literature, the paper develops a conceptual framework explaining how regulatory expansion may weaken operational authority through four interconnected mechanisms: authority fragmentation, symbolic governance expansion, externalisation of control, and authority paralysis. As governance systems become increasingly layered and procedurally dense, organisations may struggle to maintain coherent authority, technical visibility, escalation capability, and meaningful intervention power over opaque and externally mediated AI infrastructures. The paper extends institutional decoupling theory by introducing governance inversion as a structural condition in which governance expansion may actively undermine operational coherence rather than strengthen it. It concludes that the central risk in AI governance may not be the absence of governance structures, but the emergence of institutions that appear increasingly governed while progressively losing the capacity to govern effectively.

arXiv

Interpretable machine learning for predicting splitting strength of asphalt concrete: insights from SHAP analysis

Jianglei Xing, Xiao Tan, Dongzhao Jin, Pengwei Guo, Yuhuan Wang, Huiya Niu

This paper presents an interpretable machine-learning framework for predicting the splitting strength (ST) of asphalt concrete and supporting data-driven mixture design. A database consisting of 296 samples was established, and 14 input variables related to asphalt properties, aggregate gradation, and fiber characteristics were selected for modeling. Six machine-learning models, namely TabPFN, ANN, SVR, RF, XGBoost, and LightGBM, were developed and compared. Hyperparameter optimization was performed for five models using NSGA-II, while TabPFN was directly applied with its default configuration. The results show that all six models achieved satisfactory predictive capability, whereas TabPFN delivered the best overall performance on the testing set, with the lowest RMSE of 0.28, MAE of 0.21, MAPE of 18.01%, MAD of 0.14, the highest R^2 of 0.88, and the highest composite score of 0.91. SHAP analysis further revealed that nine dominant variables accounted for 92.0% of the total average contribution, among which Ag9.5, FT, Ag4.75, AC, and Du were the most influential. In addition, favorable parameter ranges for improving ST were quantified, such as Ag9.5 < 66.8%, Ag4.75 < 45.0%, AC < 5.4 wt.%, AV < 3.6%, and Du > 134.7 cm. Finally, a GUI platform integrating prediction and SHAP-based explanation was developed to improve the accessibility and practical applicability of the proposed framework.

arXiv

Data-Driven Pinball-Loss Selection for Vertically Distributed Elastic-Net SVMs

Xiaofei Wu, Kai Qi, Rongmei Liang

The pinball-loss support vector machine is robust, but its asymmetry parameter is usually fixed in advance. We propose a data-driven elastic-net support vector machine that learns simplex-constrained weights over candidate pinball losses while retaining one classifier. The weighted loss is equivalent to a pinball loss with a data-dependent effective parameter. An empirical oracle inequality shows that, when weight regularization and simplex truncation vanish, the classifier objective at a global minimizer does not exceed that of the best fixed candidate; otherwise, the excess is explicitly bounded. For high-dimensional data, we develop a column-partitioned variable-splitting solver. It converges with a best-iterate $O(1/T)$ squared-step residual rate. Under common initialization and global parameters, any column partition produces, in exact arithmetic, the same iterates and solution as centralized training. Experiments assess predictive behavior, numerical equivalence, and multi-process scalability.

arXiv

Rethinking PPG-based Sleep Staging: Datasets, Metrics, and Benchmarks

Shuntian Zheng, Jiawei Wang, Cong Fu, Huan Yu, Chen Chen, Yu Guan, Sai Gu

Automated sleep staging assigns discrete stage labels to successive time epochs throughout an overnight recording; conventionally each window spans at least 30 seconds, reflecting the minimum temporal resolution of the clinical scoring standard. Wearable photoplethysmography (PPG) has attracted sustained interest as an ambulatory alternative to laboratory-based polysomnography, which relies on electroencephalography (EEG) and other recording modalities that are impractical outside clinical environments. Yet PPG-based staging trails EEG-based methods by a substantial margin, and we argue this gap largely reflects a mismatch between signal and task. Within a stable stage, PPG's inter-stage feature differences are more subtle than those in EEG; yet at stage boundaries, PPG's principal cardiovascular features, heart rate variability and pulse morphology, shift sharply within seconds. The conventional practice of assigning one label to each 30-second epoch therefore suppresses feature that is concentrated near boundaries. We address this gap in two steps. First, we develop a label expansion pipeline based on Hidden Semi-Markov Models that converts coarse epoch labels into sec-level annotations. To assess whether these expanded labels are reliable enough for downstream supervision, we validate them on a separate expert-reviewed dataset and through an auxiliary sleep-wake task whose labels are independent of the expansion pipeline. Second, we use the resulting sec-level supervision on MESA to improve conventional four-class epoch-level staging across four architecturally diverse baselines by 3.7--5.7\,pp in accuracy against the original epoch labels, with supplementary zero-shot evaluation on CFS showing that the transfer benefit persists under cohort and annotation-protocol shift.

arXiv

BioInsight: Multi-Agent Orchestration for Interactive Biomedical Knowledge Discovery

Jieyi Wang, Bingxuan Li, Nanyi Jiang, Desong Meng, Zirui Fan, Yuxin Guo, Jiayu Liu, Kunlun Zhu, Eddie Yang, Xiusi Chen, Pan Lu, Bingxin Zhao

Biomedical deep-research systems increasingly retrieve and synthesize scientific evidence, but their outputs typically collapse heterogeneous evidence into static text, making provenance difficult to inspect and reuse. We formulate evidence-centered biomedical knowledge discovery, where disease-associated protein signals are transformed into a structured evidence state connecting proteins, pathways, publications, interactions, claims, and uncertainty. We introduce BioInsight, a provenance-preserving multi-agent orchestration framework built around typed artifact contracts and an independent Search Agent that decouples evidence acquisition from downstream mechanistic reasoning, supporting both the citation-grounded report and an interactive evidence workspace, without independently regenerating evidence for visualization. We evaluate BioInsight on standardized biomedical QA, challenging protein-function reasoning, and end-to-end biomedical evidence synthesis. The results demonstrate that BioInsight achieves better traceability and ranking performance than standard search-augmented baselines, and suggest that biomedical AI systems should move toward provenance-preserving, interactive evidence artifacts.

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