arXiv subjects

Lu Chen

Publications and source records attributed to Lu Chen.

At least 37 records · Page 2Linked to original sources

arXiv2026

Transcriptomic Models for Immunotherapy Response Prediction Show Limited Cross-cohort Generalisability

Immune checkpoint inhibitors (ICIs) have transformed cancer therapy; yet substantial proportion of patients exhibit intrinsic or acquired resistance, making accurate pre-treatment response prediction a critical unmet need. Transcriptomics-based biomarkers derived from bulk and single-cell RNA sequencing (scRNA-seq) offer a promising avenue for capturing tumour-immune interactions, yet the cross-cohort generalisability of existing prediction models remains unclear.We systematically benchmark nine state-of-the-art transcriptomic ICI response predictors, five bulk RNA-seq-based models (COMPASS, IRNet, NetBio, IKCScore, and TNBC-ICI) and four scRNA-seq-based models (PRECISE, DeepGeneX, Tres and scCURE), using publicly available independent datasets unseen during model development. Overall, predictive performance was modest: bulk RNA-seq models performed at or near chance level across most cohorts, while scRNA-seq models showed only marginal improvements. Pathway-level analyses revealed sparse and inconsistent biomarker signals across models. Although scRNA-seq-based predictors converged on immune-related programs such as allograft rejection, bulk RNA-seq-based models exhibited little reproducible overlap. PRECISE and NetBio identified the most coherent immune-related themes, whereas IRNet predominantly captured metabolic pathways weakly aligned with ICI biology. Together, these findings demonstrate the limited cross-cohort robustness and biological consistency of current transcriptomic ICI prediction models, underscoring the need for improved domain adaptation, standardised preprocessing, and biologically grounded model design.

q-bio.GN↗

arXiv2026

On an inverse boundary problem in elastodynamics

We study the simultaneous identification of the Lamé parameters $λ$ and $μ$ in three-dimensional static isotropic elasticity. For smooth coefficients, we establish uniqueness from the full Dirichlet-to-Neumann map when $μ$ is axisymmetric, admits a multiplicative or additive separation on a product domain, or is quasianalytic in one fixed direction. These results require neither smallness of $\nablaμ$ nor real analyticity of the coefficients, and impose no corresponding structural condition on $λ$. In the axisymmetric and separated cases, partial boundary data suffice to determine $μ$.

math.AP↗

arXiv2026

Beyond Benefit or Risk: Perceived Impact Profiles of Human-AI Affective Interaction and Their Associations with Psychological Functioning

Relational AI increasingly serves as an emotional shelter for humans, and its impact is mixed. Prior research has focused on either positive or negative impacts, leaving unclear how they are configured within individuals and relate to psychological functioning. To address these gaps, this study used a sequential mixed-methods design. Study 1 interviewed 52 users with emotional ties to AI and identified four positive impact domains (emotional relief, loneliness alleviation, enhanced interpersonal functioning, and personal growth) and four negative impact domains (virtual-real boundary blur, social replacement, cognitive-emotional reinforcement, and excessive use). Study 2 followed 673 Chinese AI users for six months and identified four profiles of individuals differently impacted by relational AI use: minimal impact, benefit-driven impact, mixed impact, and risk-driven impact. Users in the mixed impact and risk-driven impact profiles were both high in human-AI affective bonding, but those showing risk-driven impact had greater vulnerability, indicated by higher interpersonal need frustration and emotion-regulation difficulties, more depressive and anxiety symptoms, and lower self-esteem and flourishing. Users in the benefit-driven and mixed impact profiles showed more favorable psychological functioning. After controlling for baseline functioning and relevant covariates, Wave 1 profiles did not predict five of the six Wave 2 indicators; only users in the mixed impact profile reported higher flourishing than those in the minimal impact profile. Overall, potential psychological harms associated with relational AI engagement appeared limited and selective. These findings portray relational AI as a heterogeneous socio-emotional context that may partly mirror users' states and traits, warranting individualized, adaptive safeguards.

cs.HC↗

arXiv2026

Boundary Spectral Inequalities from Measurable Sets on $W^{2,\infty}$ manifolds and their applications

Let $(\mathcal{M},g)$ be a compact connected $W^{2,\infty}$ Riemannian manifold with nonempty boundary and a uniformly elliptic Lipschitz metric. We establish quantitative boundary spectral inequalities for both Dirichlet and Neumann eigenfunctions from arbitrary measurable subsets of $\partial\mathcal{M}\times(-s_0,s_0)$ of positive surface measure. Moreover, we apply the Dirichlet spectral inequality to establish the boundary observability estimate \[ \|u(T)\|_{L^2(\mathcal{M})}^2 \le C \int_J \|\partial_{ν_g}u(x,t)\|^2 \,\mathrm{d}S_g\,\mathrm{d}t . \] where $J\subset\partial\mathcal{M}\times(0,T)$ is measurable and has positive surface--time measure. A localized theorem requiring $W^{2,\infty}$ regularity only near the observed boundary patch is retained as a separate consequence. The proof of the observability inequality combines quantitative continuation from positive-measure boundary sets with low-frequency spectral concentration. This result shows that boundary observability of solutions to the heat equation can also be achieved in $W^{2,\infty}$ domains. Finally, as an application, we prove that measurements of the boundary normal derivative on $J$ uniquely determine the initial state of heat equation. Under an a priori bound in $D(-Δ_{g, D}^{s/2})$, the recovery satisfies a logarithmic stability estimate of optimal order $s/2$.

math.AP↗

arXiv2026

FEAT: A Linear-Complexity Foundation Model for Extremely Large Structured Data

Structured data is widely used in domains such as healthcare, finance, and scientific data management. Recent studies on structured data foundation models (SFMs) aim to support data analysis and mining tasks over such data, but still face scalability and generalization challenges when applied to real-world enterprise databases. First, many SFMs rely on full self-attention, which introduces an O(N^2) computational bottleneck and limits the number of tuples that can be processed jointly. Second, directly replacing attention with linear-complexity sequence models may conflict with the permutation-invariant nature of structured data, introducing artificial order bias and degrading representation quality. Moreover, models trained only on synthetic data may struggle to generalize to the heavy-tailed and heterogeneous distributions commonly found in real-world databases. To address these challenges, we propose FEAT, a linear-complexity foundation model for extremely large structured data. FEAT replaces quadratic attention with a multi-layer dual-axis encoding architecture. It integrates an adaptive-fusion bidirectional state-space model (AFBM) with convolutional gated linear attention (Conv-GLA), enabling cross-tuple contextualization in O(N) time while supporting permutation-invariant representation learning. To improve robustness under real-world data skewness, FEAT further adopts a hybrid structural causal pre-training pipeline with a robust reconstruction objective. Experiments on 12 real-world database benchmarks show that FEAT consistently outperforms representative SFMs on zero-shot tasks and scales linearly with structured-data sample length, achieving up to 50x faster inference latency.

cs.LG↗

arXiv2026

Coupled thermoacoustic resolvent analysis of a model two-stream coaxial combustor

We derived a resolvent operator to analyze the coupled flame-acoustic effect in a model two-stream coaxial combustor. The theoretical analysis accommodates both the hydrodynamic effect of the active flame and chamber acoustic effect, as well as their coupling effect. Utilizing the coupled thermoacoustic resolvent, we are able to identify the optimal forcing of different mechanisms and their corresponding optimal responses. When this new modeling tool is applied to a two-stream coaxial model combustor, it reveals distinctly different forcing-response characteristics in the coupled system compared to those in a purely hydrodynamic linear system. Acoustic energy peaks, indicative of resonance, are observed. Additionally, it has been found that the acoustic forcing does not maintain a rank-one property. Furthermore, the modes most receptive to the flame-acoustic coupling effect can be identified using a novel sensitivity analysis approach. Interestingly, by employing the coupled thermoacoustic resolvent, we demonstrate that forcing can be designed to negate or counteract perturbations caused by the forcing of another attribute, potentially aiding in the development of effective thermoacoustic control strategies.

physics.flu-dyn↗

arXiv2026

Global recovery of Lorentzian principal geometry from the hyperbolic Dirichlet-to-Neumann map

We prove that the full Dirichlet-to-Neumann map on a finite time interval globally determines the Lorentzian metric $\mathbf G_{g,c}=-c(x,t)^2\mathrm{d}t^2+g(x)$ encoded by the principal symbol of the wave operator. The result holds in spatial dimensions $n\geq3$ for multiplicatively separable wave speeds $c(x,t)=a(x)b(t)$, provided the accumulated effective time during the experiment exceeds the maximal travel time from the boundary to the interior and back. The data determine both the unknown Riemannian metric $g(x)$ and the wave speed $c(x,t)$ throughout the observation cylinder, up to a spatial change of coordinates that fixes the boundary and leaves the measured time unchanged. In particular, the temporal factor $b$ is not prescribed but is recovered from the same measurements. We also construct several examples demonstrating that the dimensional and visibility conditions for uniqueness are sharp.

math.AP↗

arXiv2026

Chart2SVG: Editable SVG Generation from Raster Chart Images

We present Chart2SVG, a multimodal large language model that converts static raster charts into structurally organized, semantically enriched SVGs that support programmatic editing. By incorporating chart-specific semantic tokens into a vision-language model, Chart2SVG captures both geometric primitives and their functional roles. To support robust structural recovery, we introduce Beagle+, a dataset of 33K canonicalized and structurally distilled chart samples. Our approach combines specialized training objectives with a rendering-aware post-training phase, producing SVGs that are both visually accurate and structurally consistent. To facilitate higher-level manipulations, we construct a Chart Structure Graph (CSG) that exposes visual dependencies, enabling tasks such as interactive exploration, chart repurposing, and layout reuse. Experiments show that Chart2SVG substantially outperforms baselines in reconstruction fidelity and downstream editing utility, advancing the development of intelligent and interactive visualization tools.

cs.LG↗

arXiv2026

ASIL: Replacing Screenshot-and-Click with Structured State and Semantic Actions

Powerful code agents can execute scripts, call tools, and manage files, yet many important applications remain accessible primarily through graphical user interfaces. We argue that screenshot-and-click is an inefficient interface for software-operating agents: screenshots are state-incomplete, and GUI actions are brittle, semantically weak, and poorly matched to long-horizon planning. We introduce ASIL (Agent-Software Interaction Layer), an agent-native interface that exposes software through structured JSON observations and code-executable semantic actions, realized through the deepest feasible access path for each application. We instantiate ASIL across 15 applications and a benchmark of 300 single-application and 80 multi-application tasks. ASIL reaches above 80 with closed models while executing fewer than five actions per task. Under a repaired runtime and a 50-step screenshot budget, the same tasks yield 6.6 and 26.6 strict success under screenshot-and-click control, rising to 15.0 and 53.3 on an easier OSWorld-comparable band. Against application-native interfaces on matched tasks, ASIL exceeds LibreOffice's UNO API by 28-38 strict points but only matches draw.io's MCP content contract. The structured modality also suits training: small-scale SFT raises Qwen3.5-2B from 58.0 to 72.1 and Qwen3.5-9B from 66.6 to 80.4, and resource-limited on-policy RL further raises them to 74.4 and 82.2.

cs.AI↗

arXiv2026

QRTlib: A Library for Fast Quantum Real Transforms

Real-valued transforms such as the discrete cosine, sine, and Hartley transforms play a central role in classical computing, complementing the Fourier transform in applications from signal and image processing to data compression. However, their quantum counterparts have not evolved in parallel, and no unified framework exists for implementing them efficiently on quantum hardware. This article addresses this gap by introducing QRTlib, a library for fast and practical implementations of quantum real transforms, including the quantum Hartley, cosine, and sine transforms of various types. We develop new algorithms and circuit optimizations that make these transforms efficient and suitable for near-term devices. In particular, we present a quantum Hartley transform based on the linear combination of unitaries (LCU) technique, achieving a $4\times$ reduction in circuit size compared to prior methods. We also implement an improved quantum sine transform of Type I that removes the need for large multi-controlled operations. QRTlib provides the first complete implementations of these quantum real transforms in Qiskit.

quant-ph↗

arXiv2026

RetroDFM-R: Reasoning-Driven Retrosynthesis Prediction with Large Language Models via Reinforcement Learning

Retrosynthetic planning is a cornerstone of organic synthesis and drug discovery. Yet existing AI methods often rely on pattern matching rather than transferable chemical reasoning, limiting both generalizability and interpretability. Here we introduce RetroDFM-R, a reasoning-driven large language model (LLM) for chemical retrosynthesis. Leveraging large-scale reinforcement learning, RetroDFM-R moves beyond black-box prediction by coupling improved accuracy with transparent, step-by-step rationale. On the USPTO-50K benchmark, RetroDFM-R achieves 60.4% accuracy without augmentation and 66.1% with the full inference setup, outperforming previous state-of-the-art baselines. Beyond standard metrics, double-blind expert evaluation further supports the chemical plausibility and practical utility of its proposed pathways. We also demonstrate that RetroDFM-R can reconstruct complex, multistep synthetic routes for real-world pharmaceuticals and self-assembled monolayer materials. By making its reasoning explicit and human-interpretable, RetroDFM-R addresses a key barrier to trust and supports practical deployment in automated retrosynthetic planning.

cs.CE↗

arXiv2026

AegisTS: A Hierarchical Agentic AI System with Reinforcement Learning for Multivariate Time Series Data Cleaning

Multivariate time series (MTS) are frequently affected by co-occurring quality issues, such as missing values, outliers, and constraint violations, which significantly undermine downstream analytics. Existing cleaning approaches fix only a limited set of such issues, making them ill-suited for scenarios where multiple quality problems arise simultaneously. Furthermore, these methods commonly depend on the availability of ground truth data or domain-specific rules, both of which are rarely accessible in real-world applications. In this paper, we introduce AegisTS, an agent system with reinforcement learning designed to clean multiple data quality issues in MTS. We cast the cleaning process as a joint optimization problem that simultaneously handles quality issue order and cleaning model selection, allowing efficient navigation of the large space of possible cleaning pipelines. Our framework relies on a hierarchical agent architecture, where a high-level agent determines the order in which data quality issues should be processed, while a low-level agent identifies the most suitable cleaning method for each issue. To guide the agent toward an optimal cleaning pipeline, we propose a dual-stage reward mechanism that couples upstream (cleaning) and downstream performance, enabling effective optimization without relying on ground truth. Our experimental results show that AegisTS consistently outperforms existing methods, achieving up to 96% improvement in data cleaning quality and 27% improvement in downstream performance.

cs.DB↗

arXiv2026

StrategyBench: Evaluating Explicit Strategy Induction in Large Language Models

As large language models are increasingly used in data-scarce and evolving task scenarios, few-shot in-context learning (ICL) has become a key paradigm for task adaptation. However, direct ICL often uses a small set of examples without explicitly abstracting task rules, making it sensitive to example construction. In contrast, human learners often reduce such sensitivity by first summarizing task rules from examples and then applying them to new instances. To evaluate this ability, we propose StrategyBench, which selects strategy-inducible tasks from BIG-Bench, constructs reference strategies, and defines evaluation metrics along two dimensions: strategy quality and downstream utility. We further analyze strategy induction from three perspectives: task variation, model configuration, and adaptation setting, covering category-wise differences, generator-executor choices, demonstration design, and SFT-based adaptation. Experiments show that explicit strategy utility differs substantially across task categories and depends on both strategy generation and execution conditions. The benchmark is released at: https://anonymous.4open.science/r/StrategyBench-D53C.

cs.AI↗

arXiv2026

CharTool: Tool-Integrated Visual Reasoning for Chart Understanding

Charts are ubiquitous in scientific and financial literature for presenting structured data. However, chart reasoning remains challenging for multimodal large language models (MLLMs) due to the lack of high-quality training data, as well as the need for fine-grained visual grounding and precise numerical computation. To address these challenges, we first propose DuoChart, a scalable dual-source data pipeline that combines synthesized charts with real-world charts to construct diverse, high-quality chart training data. We then introduce CharTool, which equips MLLMs with external tools, including image cropping for localized visual perception and code-based computation for accurate numerical reasoning. Through agentic reinforcement learning on DuoChart, CharTool learns tool-integrated reasoning grounded in chart content. Extensive experiments on six chart benchmarks show that our method consistently improves over strong MLLM baselines across model scales. Notably, CharTool-7B outperforms the base model by +8.0% on CharXiv (Reasoning) and +9.78% on ChartQAPro, while achieving competitive performance with substantially larger or proprietary models. Moreover, CharTool demonstrates positive generalization to out-of-domain visual math reasoning benchmarks.

cs.AI↗

arXiv2026

MinerU.Chem: A High-Precision System for Optical Chemical Structure and Reaction Recognition

In organic chemistry papers and patents, molecular structures, reaction schemes, and experimental conditions are often presented as molecular structure depictions, reaction diagrams, and complex tables or figures. Such information is difficult for general-purpose document parsing systems to directly convert into machine-readable data. This limits data production for organic chemistry knowledge base construction and for AI for Chemistry tasks such as reaction prediction, retrosynthesis, condition recommendation, molecular property prediction, and drug molecule design. This report introduces MinerU-Chem, a document parsing system for organic chemistry literature integrated into the MinerU online platform. Built on top of MinerU's general document parsing pipeline, MinerU-Chem adds five chemistry-specific modules: chemistry relevance filtering, molecular structure detection, molecule identifier extraction, molecular structure recognition, and reaction scheme parsing. Together, these modules convert organic-chemistry-related image regions in documents into a Molecule Summary List and a Reaction Summary List. For molecular structure recognition, MinerU-Chem uses CARBON (Complex Atomic Representation and Bonding Object Notation) as its core representation. CARBON enables recognition results to preserve both the visual layout of the original image and complex chemical semantics, while supporting the export of standard downstream formats such as MolFile and SMILES. On the SMILES-evaluable subset of MolRecBench-Wild (N=2,392), MinerU-Chem's molecular structure recognition module achieves a SMILES exact-match accuracy of 93.02%, outperforming the best evaluated comparison system, GPT-5.6-Sol (74.87%), by 18.15 percentage points. The system has been integrated into the MinerU online platform and is available at https://mineru.net/OpenSourceTools/Extractor .

cs.CV↗

arXiv2026

JAPE: Joint Anomaly Prediction and Intrinsic Explanation in Multivariate Time Series

Multivariate time-series anomaly prediction aims to identify whether and when anomalies will occur over a future horizon from historical observations. Existing methods primarily characterize anomalies as deviations in future numerical values, which may overlook subtle dependency changes induced by weak anomaly precursors and provide no native variable-level explanation together with the alert. To bridge these gaps, we propose JAPE, a Joint Anomaly Prediction and Explanation framework that lifts anomaly prediction from numerical-deviation modeling to dependency-structure modeling. JAPE is the first anomaly prediction framework to explicitly model evolving dependency structures for both point-wise alerting and native variable-level explanation. Specifically, JAPE (i) proposes a Decoupled Spatio-Temporal Representation (DSTR) backbone that decouples temporal and spatial modeling and captures lag-aware dependencies via learnable lag aggregation, thereby perceiving structural precursors before numerical deviations emerge; (ii) designs a dual-view alerting mechanism that fuses numerical forecasts with evolving dependency graphs for point-wise anomaly prediction, capturing structural evidence even under subtle numerical deviations; and (iii) presents Native Predictive Explanation (NPE), which directly reuses the predicted dependency graphs to rank variables by structural deviations without additional models or training. Extensive experiments on five real-world benchmarks across three prediction horizons demonstrate that JAPE improves average F1 and AUC-PR by 19.7% and 41.3%, respectively, while improving explainability with 26.6% gain in MRR.

cs.LG↗

arXiv2026

A diffusion model for time-dependent compositional data

We introduce a stochastic process for modeling the evolution in time of compositional measurements (i.e., a vector of non-negative values that add up to a total of 1). This model is a diffusion, as it is defined as the solution for a stochastic differential equation in the Ito sense, and it has a Dirichlet distribution as its steady distribution. We have named this process Dirichlet Diffusion (DD). As the process is confined to a manifold and the coefficients of the equation are not globally Lipschitz, the usual theorems do not apply directly and establishing the existence and properties of solutions requires a somewhat delicate analysis. We establish the existence of strong solutions under the assumption that all the parameters of the Dirichlet distribution are greater than 2; for the general case we were only able to establish the existence of weak solutions, but also that these solutions remain confined to the closed simplex without need for reflecting boundaries. A useful feature of DD that it inherits from the Dirichlet distribution is the property of aggregation: If components are combined to create a coarser composition, the resulting process is also a DD. This makes it useful, for example, for jointly modeling the evolution of a microbiome grouping the microbe species at different taxonomic levels.

math.PR↗

arXiv2026

A Q-learning-based QoS-aware multipath routing protocol in IoMT-based wireless body area network

The Internet of Medical Things (IoMT) enables intelligent healthcare services but faces challenges such as dynamic topology, energy constraints, and diverse QoS requirements. This paper proposes QQMR, a Q-learning-based QoS-aware multipath routing method for WBANs. QQMR classifies data into three priority levels and employs adaptive multi-level queuing and fuzzy C-means clustering to optimize routing decisions. It maintains separate learning policies for each data type and selects primary and backup paths accordingly. Experimental results demonstrate improved packet delivery ratio and significant reductions in delay, routing overhead, and energy consumption compared to existing methods.

cs.NI↗