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Jionglong Su

Publications and source records attributed to Jionglong Su.

At least 19 recordsLinked to original sources
arXiv2026

TaxoMFM: A Taxonomy-Aware Foundation Model for the Human Gut Microbiome

Existing gut microbiome foundation models typically use flat taxon representations, limiting their ability to exploit known taxonomic hierarchies. We introduce TaxoMFM, a microbiome foundation model that integrates taxonomic structure into self-supervised learning. TaxoMFM jointly learns abundance patterns across taxonomic ranks and relative proportions within groups through taxonomy-aware encoding and hierarchical compositional reconstruction. We further construct TaxoGut-HPP, comprising 100,806 gut microbiome profiles from 231 source cohorts and covering 40 classification and 8 regression tasks. TaxoMFM achieves competitive performance across disease, gut health, host trait, and liver ultrasound phenotype prediction. In cross-cohort zero-shot transfer, where target cohorts are excluded from both pretraining and downstream adaptation, TaxoMFM achieves AUROCs of 0.838, 0.736, and 0.722 for colorectal cancer, type 2 diabetes, and inflammatory bowel disease, respectively. Further analyses show that TaxoMFM recovers community changes across taxonomic scales, while preserving community information and producing consistent representations under database updates and species-vocabulary shifts. Our code is available at https://anonymous.4open.science/r/TaxoMFM-F16D/.

cs.LG↗
arXiv2026

DoAtlas-2: A Foundation for Self-Evolving Causal Biomedical Discovery

We introduce DoAtlas-2, a foundation for self-evolving causal biomedical discovery that organizes knowledge around causal mechanisms and advances through external evidence from human populations. DoAtlas-2 integrates 771 research resources covering more than 720,000 participants in 48 countries, from longitudinal clinical phenotypes, medical imaging, and continuous physiological signals to eight molecular layers, together with an evidence network of approximately 4.7 million literature-derived records over 93,566 concepts and 149,383 candidate causal relations. DoAtlas-2 autonomously formulates research questions from evidence gaps and unresolved mechanisms, prespecifies their causal designs, and generates validated analyses. Supporting, challenging, and unresolved results continuously revise mechanistic interpretations, the causal evidence state, and the discovery frontier, so that DoAtlas-2 self-evolves within a closed loop of hypothesis generation, empirical testing, and renewed discovery. DoAtlas-2 has systematically evaluated 2,031 research questions. In the Human Phenotype Project (HPP), it formulated 4,014 candidate pathway questions across vascular, early-glycemic, and hepatic-metabolic systems, and screening of the first 1,079 yielded statistical support for 756. Representative studies identify blood pressure as a convergence node linking adiposity, hepatic, and lipid phenotypes to vascular outcomes, and show that an adiposity-inflammation-blood-pressure pathway is largely attenuated by joint adjustment for body mass index (BMI) and smoking. The discovered vascular network constitutes a completely interpretable predictive foundation, admitting exact attribution of every prediction and closed-form mediation effects. DoAtlas-2 thereby unifies causal mechanism discovery, population-evidence testing, and interpretable prediction within one continuously evolving foundation.

cs.AI↗
arXiv2026

ContiLNN: Mitigating Slice Sampling Discontinuity with Liquid Neural Networks for Medical Image Restoration

Anatomical continuity provides complementary information for medical image restoration, but its use requires accounting for local anatomy and variations in slice sampling. We introduce ContiLNN, which augments two-dimensional restoration backbones with bidirectional closed-form continuous-time (Bi-CfC) modules for cross-slice modeling while retaining in-plane feature extraction. Slice-index intervals modulate gates determined by local features and hidden states, enabling propagation to respond to sampling variations without numerical ODE integration. Reference-guided consistency aligns first- and second-order cross-slice intensity differences to preserve anatomical variation, while distillation from a frozen backbone helps retain in-plane fidelity. Across five training seeds, ContiLNN improves mean PSNR over Restore-RWKV by 0.1907, 1.0176, and 1.2482 dB for CT denoising, MRI super-resolution, and reduced-count PET restoration, respectively, with lower RMSE in all three tasks. CT results are descriptive for one held-out patient. PET ablations support ordered propagation beyond additional pointwise capacity. Under contiguous training, Bi-CfC achieves higher fidelity than a Bi-GRU with similar parameter counts and arithmetic costs across all tested sampling conditions. Matched seven-slice profiling shows 52.8% lower latency and 57.0% lower peak GPU memory use than Bi-GRU. Mixed-gap training improves sparse and irregular-context performance for both operators, without a uniform ranking across metrics and contexts. Experiments with fewer training patients and a second backbone further support data efficiency and backbone compatibility.

cs.CV↗
arXiv2026

SinoGlyphBench: A Diagnostic Benchmark for Chinese Glyph-Level Obfuscation in Language-Model Moderation

Glyph-level obfuscation can leave harmful Chinese content readable to humans while degrading automated moderation. We introduce SinoGlyphBench, a diagnostic benchmark that identifies label-critical semantic anchors and creates matched original and glyph-obfuscated inputs in text and image modalities. By perturbing anchors, background context, or both, this design distinguishes corruption of moderation-relevant evidence from general surface variation. Across 176,916 paired evaluations of 12 LLMs and MLLMs, obfuscation increases harmful false-negative and false-positive rates by 6.1 and 4.7 percentage points, respectively, and reduces four-way accuracy by 5.0 points. Models retain 75.7% of the decisions that were correct on the matched original inputs. Full-scope perturbations cause the largest degradation, anchor-only perturbations are more damaging than background-only perturbations, and cross-script substitution is particularly difficult in the text modality. Analysis of structured outputs identifies observable mismatches in visible-form reading, intended-message recovery, and final safety judgment. The evaluated models, therefore, remain brittle to Chinese content written with non-canonical glyphs. Resources are available at https://github.com/fengshun124/SinoGlyphBench.

cs.CL↗
arXiv2026

HPR-SAM: Hierarchical Probabilistic Representation Learning for Prompt-free SAM-based Medical Image Segmentation

Prompt-free adaptation of the Segment Anything Model (SAM) has emerged as a promising paradigm for automatic medical image segmentation. Existing methods mainly focus on prompt generation, while overlooking that prompt quality is fundamentally constrained by the expressiveness of anatomical representations. However, deterministic prototypes or semantic tokens are insufficient to jointly capture global anatomical priors, intra-structure diversity, and local structural reliability. To address this limitation, we propose the Hierarchical Probabilistic Representation (HPR) framework, which learns complementary anatomical representations through Distributional Anatomical Representation (DAR), Multi-component Anatomical Representation (MAR), and Local Reliability Representation (LRR), and integrates their predictions via Hierarchical Prediction Fusion (HPF) while remaining compatible with the original SAM decoder. Experiments on the Synapse, LA, and PROMISE12 datasets demonstrate that HPR-SAM achieves state-of-the-art performance on Synapse and the best performance under few-shot settings on LA and PROMISE12, validating the effectiveness of the proposed hierarchical probabilistic representation learning framework for prompt-free medical image segmentation. Code is available at https://anonymous.4open.science/r/HPR-SAM-E4AF.

cs.CV↗
arXiv2026

TAVR-VLM: Risk-Conditioned Causal Grounding for Hallucination-Resistant Report Generation

Transcatheter Aortic Valve Replacement (TAVR) planning requires meticulous multimodal reasoning. However, adapting Multimodal Large Language Models (MLLMs) to this high-stakes domain is severely impeded by diagnostic hallucinations, where generated text lacks anatomical grounding. To address this, TAVR-VLM is introduced: a novel framework featuring Risk-Conditioned Causal Grounding Attention (R-CGA) that instantiates a model-internal ``Risk $\rightarrow$ Region $\rightarrow$ Word'' structural grounding pathway. R-CGA compresses multimodal inputs into a causal risk bottleneck, purifying dense visual features into a global risk mask. During autoregressive generation, a support-projected causal consistency objective constrains token-level grounding within the risk-defined support mask. Evaluated on $\text{M}^3\text{TAVR}$, a comprehensive 1,482-patient cohort, TAVR-VLM establishes a new state-of-the-art. It achieves an AUROC of 0.896, boosts CIDEr to 0.936, and drastically reduces the hallucination rate to 8.1\%, thereby improving interpretability for evidence-based surgical AI.

cs.AI↗
arXiv2026

EvidenceLens: A Claim-Evidence Matrix for Auditing Financial Question Answering

Large language models are increasingly used to answer questions over annual reports, earnings decks, and analyst notes, yet their outputs remain difficult to verify in high-stakes financial workflows. A fluent answer can blend directly grounded statements, weak synthesis, and unsupported claims across narrative text, tables, and charts. We present EvidenceLens, a visual analytics prototype that treats financial question answering as a claim-evidence alignment problem. The system decomposes an answer into atomic claims, summarizes support composition and confidence, support gaps, and coordinates claim-level inspection with source passages, table cells, and chart regions. Its core visual representation is a multimodal claim-evidence matrix that makes coverage, contradiction, and modality imbalance immediately visible. To support reproducibility, we also specify a JSON-based artifact schema, a lightweight multimodal alignment pipeline, and a deterministic review-priority ranking that maps backend signals into an auditable visual structure. Through representative report-auditing scenarios, we show how EvidenceLens helps analysts distinguish grounded claims from overconfident synthesis that conventional chat interfaces flatten.

cs.IR↗
arXiv2026

Addressing Market Regime Changes and Heavy-Tailed Returns in Portfolio Optimization via Bayesian VAR and Elliptical Black-Litterman

Deep reinforcement learning (DRL) frameworks for portfolio optimization have shown promise for their ability to learn allocation rules dynamically from market data. However, these models fail to account for fat-tailed returns, which characterize actual market behavior with more frequent extreme events. Furthermore, historical data is treated homogeneously, without accounting for temporal importance, leading models to fail during regime changes. We propose a new BAVAR-BLED algorithm that combines methods derived from Bayesian-Averaging Vector Autoregressive (BAVAR) and the Black-Litterman model using Elliptical Distributions (BLED) within a TD3 architecture. BAVAR captures a set of vector autoregressive representations that consider multi-scale temporal features, enabling adaptive allocation decisions based on regime-aware estimates of return expectations and dispersion matrices. These estimates serve as prior inputs to BLED, a model that uses Student's t-distributions, allowing for more realistic fat tail return estimates. The BAVAR-BLED algorithm uses transformer networks for view construction and CNNs for risk-aversion estimates, which modify dynamic allocation decisions based on market conditions. An evaluation of 29 Dow Jones Industrial Average constituents over a decade-long market period shows that BAVAR-BLED significantly outperforms state-of-the-art methods, achieving Sharpe and Sortino ratios of 1.72 and 2.70, respectively, and total returns of 57.26%.

cs.LG↗
arXiv2026

Dialectic-Med: Mitigating Diagnostic Hallucinations via Counterfactual Adversarial Multi-Agent Debate

Multimodal Large Language Models (MLLMs) in healthcare suffer from severe confirmation bias, often hallucinating visual details to support initial, potentially erroneous diagnostic hypotheses. Existing Chain-of-Thought (CoT) approaches lack intrinsic correction mechanisms, rendering them vulnerable to error propagation. To bridge this gap, we propose Dialectic-Med, a multi-agent framework that enforces diagnostic rigor through adversarial dialectics. Unlike static consensus models, Dialectic-Med orchestrates a dynamic interplay between three role-specialized agents: a proponent that formulates diagnostic hypotheses; an opponent equipped with a novel visual falsification module that actively retrieves contradictory visual evidence to challenge the Proponent; and a mediator that resolves conflicts via a weighted consensus graph. By explicitly modeling the cognitive process of falsification, our framework guarantees that diagnostic reasoning is tightly grounded in verified visual regions. Empirical evaluations on MIMIC-CXR-VQA, VQA-RAD, and PathVQA demonstrate that Dialectic-Med not only achieves state-of-the-art performance but also fundamentally enhances the trustworthiness of the reasoning process. Beyond accuracy, our approach significantly enhances explanation faithfulness and decisively mitigates hallucinations, establishing a new standard over single-agent baselines.

cs.CL↗
arXiv2026

Semantic-Topological Graph Reasoning for Language-Guided Pulmonary Screening

Medical image segmentation driven by free-text clinical instructions is a critical frontier in computer-aided diagnosis. However, existing multimodal and foundation models struggle with the semantic ambiguity of clinical reports and fail to disambiguate complex anatomical overlaps in low-contrast scans. Furthermore, fully fine-tuning these massive architectures on limited medical datasets invariably leads to severe overfitting. To address these challenges, we propose a novel Semantic-Topological Graph Reasoning (STGR) framework for language-guided pulmonary screening. Our approach elegantly synergizes the reasoning capabilities of large language models (LLaMA-3-V) with the zero-shot delineation of vision foundation models (MedSAM). Specifically, we introduce a Text-to-Vision Intent Distillation (TVID) module to extract precise diagnostic guidance. To resolve anatomical ambiguity, we formulate mask selection as a dynamic graph reasoning problem, where candidate lesions are modeled as nodes and edges capture spatial and semantic affinities. To ensure deployment feasibility, we introduce a Selective Asymmetric Fine-Tuning (SAFT) strategy that updates less than 1% of the parameters. Rigorous 5-fold cross-validation on the LIDC-IDRI and LNDb datasets demonstrates that our framework establishes a new state-of-the-art. Notably, it achieves an 81.5% Dice Similarity Coefficient (DSC) on LIDC-IDRI, outperforming leading LLM-based tools like LISA by over 5%. Crucially, our SAFT strategy acts as a powerful regularizer, yielding exceptional cross-fold stability (0.6% DSC variance) and paving the way for robust, context-aware clinical deployment.

cs.CV↗
arXiv2026

Attention-Guided Flow-Matching for Sparse 3D Geological Generation

Constructing high-resolution 3D geological models from sparse 1D borehole and 2D surface data is a highly ill-posed inverse problem. Traditional heuristic and implicit modeling methods fundamentally fail to capture non-linear topological discontinuities under extreme sparsity, often yielding unrealistic artifacts. Furthermore, while deep generative architectures like Diffusion Models have revolutionized continuous domains, they suffer from severe representation collapse when conditioned on sparse categorical grids. To bridge this gap, we propose 3D-GeoFlow, the first Attention-Guided Continuous Flow Matching framework tailored for sparse multimodal geological modeling. By reformulating discrete categorical generation as a simulation-free, continuous vector field regression optimized via Mean Squared Error, our model establishes stable, deterministic optimal transport paths. Crucially, we integrate 3D Attention Gates to dynamically propagate localized borehole features across the volumetric latent space, ensuring macroscopic structural coherence. To validate our framework, we curated a large-scale multimodal dataset comprising 2,200 procedurally generated 3D geological cases. Extensive out-of-distribution (OOD) evaluations demonstrate that 3D-GeoFlow achieves a paradigm shift, significantly outperforming heuristic interpolations and standard diffusion baselines.

cs.CV↗
arXiv2026

MERIT: Multilingual Expert-Reward Informed Tuning for Chinese-Centric Low-Resource Machine Translation

Neural machine translation (NMT) from Chinese to low-resource Southeast Asian languages remains severely constrained by the extreme scarcity of clean parallel corpora and the pervasive noise in existing mined data. This chronic shortage not only impedes effective model training but also sustains a large performance gap with high-resource directions, leaving millions of speakers of languages such as Lao, Burmese, and Tagalog with persistently low-quality translation systems despite recent advances in large multilingual models. We introduce \textbf{M}ultilingual \textbf{E}xpert-\textbf{R}eward \textbf{I}nformed \textbf{T}uning (\textbf{MERIT}), a unified translation framework that transforms the traditional English-centric ALT benchmark into a Chinese-centric evaluation suite for five Southeast Asian low-resource languages (LRLs). Our framework combines language-specific token prefixing (LTP) with supervised fine-tuning (SFT) and a novel group relative policy optimization (GRPO) guided by the semantic alignment reward (SAR). These results confirm that, in LRL{\textrightarrow}Chinese translation, targeted data curation and reward-guided optimization dramatically outperform mere model scaling.

cs.CL↗
arXiv2026

SkinCLIP-VL: Consistency-Aware Vision-Language Learning for Multimodal Skin Cancer Diagnosis

The deployment of vision-language models (VLMs) in dermatology is hindered by the trilemma of high computational costs, extreme data scarcity, and the black-box nature of deep learning. To address these challenges, we present SkinCLIP-VL, a resource-efficient framework that adapts foundation models for trustworthy skin cancer diagnosis. Adopting a frozen perception, adaptive reasoning paradigm, we integrate a frozen CLIP encoder with a lightweight, quantized Qwen2.5-VL via low-rank adaptation (LoRA). To strictly align visual regions with clinical semantics under long-tailed distributions, we propose the Consistency-aware Focal Alignment (CFA) Loss. This objective synergizes focal re-weighting, semantic alignment, and calibration. On ISIC and Derm7pt benchmarks, SkinCLIP-VL surpasses 13B-parameter baselines by 4.3-6.2% in accuracy with 43% fewer parameters. Crucially, blinded expert evaluation and out-of-distribution testing confirm that our visually grounded rationales significantly enhance clinical trust compared to traditional saliency maps.

cs.CV↗
arXiv2026

SAGE: Sustainable Agent-Guided Expert-tuning for Culturally Attuned Translation in Low-Resource Southeast Asia

The vision of an inclusive World Wide Web is impeded by a severe linguistic divide, particularly for communities in low-resource regions of Southeast Asia. While large language models (LLMs) offer a potential solution for translation, their deployment in data-poor contexts faces a dual challenge: the scarcity of high-quality, culturally relevant data and the prohibitive energy costs of training on massive, noisy web corpora. To resolve the tension between digital inclusion and environmental sustainability, we introduce Sustainable Agent-Guided Expert-tuning (SAGE). This framework pioneers an energy-aware paradigm that prioritizes the "right data" over "big data". Instead of carbon-intensive training on unfiltered datasets, SAGE employs a reinforcement learning (RL) agent, optimized via Group Relative Policy Optimization (GRPO), to autonomously curate a compact training set. The agent utilizes a semantic reward signal derived from a small, expert-constructed set of community dialogues to filter out noise and cultural misalignment. We then efficiently fine-tune open-source LLMs on this curated data using Low-Rank Adaptation (LoRA). We applied SAGE to translation tasks between English and seven low-resource languages (LRLs) in Southeast Asia. Our approach establishes new state-of-the-art performance on BLEU-4 and COMET-22 metrics, effectively capturing local linguistic nuances. Crucially, SAGE surpasses baselines trained on full datasets while reducing data usage by 97.1% and training energy consumption by 95.2%. By delivering high-performance models with a minimal environmental footprint, SAGE offers a scalable and responsible pathway to bridge the digital divide in the Global South.

cs.CL↗
arXiv2026

ConFoThinking: Consolidated Focused Attention Driven Thinking for Visual Question Answering

Thinking with Images improves fine-grained VQA for MLLMs by emphasizing visual cues. However, tool-augmented methods depend on the capacity of grounding, which remains unreliable for MLLMs. In parallel, attention-driven methods to crop the Region of Interest (ROIs) are proposed but they are constrained by (1) fragmented attention signals scattered across layers, leading to suboptimal localization and (2) relying on question- or redundant-text-conditioned attention extraction. Our analysis reveals three patterns: MLLMs may attend to the correct region yet generate incorrect coordinates, where-to-look attention is often fragmented across layers, and attention extraction is query-sensitive. Motivated by these, We propose ConFoThinking, a Consolidated-Focused-Attention-Driven Thinking framework that learns to aggregate attention into a designated intermediate layer, from which we mine and zoom in salient regions for downstream visual understanding. Moreover, we extract attention using concise semantic cues of what to look into, which mitigates the semantic noise introduced by question- or redundant-text-based attention extraction. Experiments across five VQA benchmarks demonstrate ConFoThinking significantly improves perception performance. The code, checkpoints, and dataset will be released after being accepted.

cs.CV↗
arXiv2026

DeepGB-TB: A Risk-Balanced Cross-Attention Gradient-Boosted Convolutional Network for Rapid, Interpretable Tuberculosis Screening

Large-scale tuberculosis (TB) screening is limited by the high cost and operational complexity of traditional diagnostics, creating a need for artificial-intelligence solutions. We propose DeepGB-TB, a non-invasive system that instantly assigns TB risk scores using only cough audio and basic demographic data. The model couples a lightweight one-dimensional convolutional neural network for audio processing with a gradient-boosted decision tree for tabular features. Its principal innovation is a Cross-Modal Bidirectional Cross-Attention module (CM-BCA) that iteratively exchanges salient cues between modalities, emulating the way clinicians integrate symptoms and risk factors. To meet the clinical priority of minimizing missed cases, we design a Tuberculosis Risk-Balanced Loss (TRBL) that places stronger penalties on false-negative predictions, thereby reducing high-risk misclassifications. DeepGB-TB is evaluated on a diverse dataset of 1,105 patients collected across seven countries, achieving an AUROC of 0.903 and an F1-score of 0.851, representing a new state of the art. Its computational efficiency enables real-time, offline inference directly on common mobile devices, making it ideal for low-resource settings. Importantly, the system produces clinically validated explanations that promote trust and adoption by frontline health workers. By coupling AI innovation with public-health requirements for speed, affordability, and reliability, DeepGB-TB offers a tool for advancing global TB control.

cs.LG↗
arXiv2026

Causal-SAM-LLM: Large Language Models as Causal Reasoners for Robust Medical Segmentation

The clinical utility of deep learning models for medical image segmentation is severely constrained by their inability to generalize to unseen domains. This failure is often rooted in the models learning spurious correlations between anatomical content and domain-specific imaging styles. To overcome this fundamental challenge, we introduce Causal-SAM-LLM, a novel framework that elevates Large Language Models (LLMs) to the role of causal reasoners. Our framework, built upon a frozen Segment Anything Model (SAM) encoder, incorporates two synergistic innovations. First, Linguistic Adversarial Disentanglement (LAD) employs a Vision-Language Model to generate rich, textual descriptions of confounding image styles. By training the segmentation model's features to be contrastively dissimilar to these style descriptions, it learns a representation robustly purged of non-causal information. Second, Test-Time Causal Intervention (TCI) provides an interactive mechanism where an LLM interprets a clinician's natural language command to modulate the segmentation decoder's features in real-time, enabling targeted error correction. We conduct an extensive empirical evaluation on a composite benchmark from four public datasets (BTCV, CHAOS, AMOS, BraTS), assessing generalization under cross-scanner, cross-modality, and cross-anatomy settings. Causal-SAM-LLM establishes a new state of the art in out-of-distribution (OOD) robustness, improving the average Dice score by up to 6.2 points and reducing the Hausdorff Distance by 15.8 mm over the strongest baseline, all while using less than 9% of the full model's trainable parameters. Our work charts a new course for building robust, efficient, and interactively controllable medical AI systems.

cs.CV↗
arXiv2025

SAMP-HDRL: Segmented Allocation with Momentum-Adjusted Utility for Multi-agent Portfolio Management via Hierarchical Deep Reinforcement Learning

Portfolio optimization in non-stationary markets is challenging due to regime shifts, dynamic correlations, and the limited interpretability of deep reinforcement learning (DRL) policies. We propose a Segmented Allocation with Momentum-Adjusted Utility for Multi-agent Portfolio Management via Hierarchical Deep Reinforcement Learning (SAMP-HDRL). The framework first applies dynamic asset grouping to partition the market into high-quality and ordinary subsets. An upper-level agent extracts global market signals, while lower-level agents perform intra-group allocation under mask constraints. A utility-based capital allocation mechanism integrates risky and risk-free assets, ensuring coherent coordination between global and local decisions. backtests across three market regimes (2019--2021) demonstrate that SAMP-HDRL consistently outperforms nine traditional baselines and nine DRL benchmarks under volatile and oscillating conditions. Compared with the strongest baseline, our method achieves at least 5\% higher Return, 5\% higher Sharpe ratio, 5\% higher Sortino ratio, and 2\% higher Omega ratio, with substantially larger gains observed in turbulent markets. Ablation studies confirm that upper--lower coordination, dynamic clustering, and capital allocation are indispensable to robustness. SHAP-based interpretability further reveals a complementary ``diversified + concentrated'' mechanism across agents, providing transparent insights into decision-making. Overall, SAMP-HDRL embeds structural market constraints directly into the DRL pipeline, offering improved adaptability, robustness, and interpretability in complex financial environments.

cs.AI↗