PPGL-Swarm: Integrated Multimodal Risk Stratification and Hereditary Syndrome Detection in Pheochromocytoma and Paraganglioma

Pheochromocytomas and paragangliomas (PPGLs) are rare neuroendocrine tumors, of which 15-25% develop metastatic disease with 5-year survival rates reported as low as 34%. PPGL may indicate hereditary syndromes requiring stricter, syndrome-specific treatment and surveillance, but clinicians often fail to recognize these associations in routine care. Clinical practice uses GAPP score for PPGL grading, but several limitations remain for PPGL diagnosis: (1) GAPP scoring demands a high workload for clinician because it requires the manual evaluation of six independent components; (2) key components such as cellularity and Ki-67 are often evaluated with subjective criteria; (3) several clinically relevant metastatic risk factors are not captured by GAPP, such as SDHB mutations, which have been associated with reported metastatic rates of 35-75%. Agent-driven diagnostic systems appear promising, but most lack traceable reasoning for decision-making and do not incorporate domain-specific knowledge such as PPGL genotype information. To address these limitations, we present PPGL-Swarm, an agentic PPGL diagnostic system that generates a comprehensive report, including automated GAPP scoring (with quantified cellularity and Ki-67), genotype risk alerts, and multimodal report with integrated evidence. The system provides an auditable reasoning trail by decomposing diagnosis into micro-tasks, each assigned to a specialized agent. The gene and table agents use knowledge enhancement to better interpret genotype and laboratory findings, and during training we use reinforcement learning to refine tool selection and task assignment.

TAB-AUDIT: Detecting AI-Fabricated Scientific Tables via Multi-View Likelihood Mismatch

AI-generated fabricated scientific manuscripts raise growing concerns with large-scale breaches of academic integrity. In this work, we present the first systematic study on detecting AI-generated fabricated scientific tables in empirical NLP papers, as information in tables serve as critical evidence for claims. We construct FabTab, the first benchmark dataset of fabricated manuscripts with tables, comprising 1,173 AI-generated papers and 1,215 human-authored ones in empirical NLP. Through a comprehensive analysis, we identify systematic differences between fabricated and real tables and operationalize them into a set of discriminative features within the TAB-AUDIT framework. The key feature, within-table mismatch, captures the perplexity gap between a table's skeleton and its numerical content. Experimental results show that RandomForest built on these features significantly outperform prior state-of-the-art methods, achieving 0.987 AUROC in-domain and 0.883 AUROC out-of-domain. Our findings highlight experimental tables as a critical forensic signal for detecting AI-generated scientific fraud and provide a new benchmark for future research.

ZTab: Domain-based Zero-shot Annotation for Table Columns

This study addresses the challenge of automatically detecting semantic column types in relational tables, a key task in many real-world applications. Zero-shot modeling eliminates the need for user-provided labeled training data, making it ideal for scenarios where data collection is costly or restricted due to privacy concerns. However, existing zero-shot models suffer from poor performance when the number of semantic column types is large, limited understanding of tabular structure, and privacy risks arising from dependence on high-performance closed-source LLMs. We introduce ZTab, a domain-based zero-shot framework that addresses both performance and zero-shot requirements. Given a domain configuration consisting of a set of predefined semantic types and sample table schemas, ZTab generates pseudo-tables for the sample schemas and fine-tunes an annotation LLM on them. ZTab is domain-based zero-shot in that it does not depend on user-specific labeled training data; therefore, no retraining is needed for a test table from a similar domain. We describe three cases of domain-based zero-shot. The domain configuration of ZTab provides a trade-off between the extent of zero-shot and annotation performance: a "universal domain" that contains all semantic types approaches "pure" zero-shot, while a "specialized domain" that contains semantic types for a specific application enables better zero-shot performance within that domain. Source code and datasets are available at https://github.com/hoseinzadeehsan/ZTab

Agentic DAG-Orchestrated Planner Framework for Multi-Modal, Multi-Hop Question Answering in Hybrid Data Lakes

Enterprises increasingly need natural language (NL) question answering over hybrid data lakes that combine structured tables and unstructured documents. Current deployed solutions, including RAG-based systems, typically rely on brute-force retrieval from each store and post-hoc merging. Such approaches are inefficient and leaky, and more critically, they lack explicit support for multi-hop reasoning, where a query is decomposed into successive steps (hops) that may traverse back and forth between structured and unstructured sources. We present Agentic DAG-Orchestrated Transformer (A.DOT) Planner, a framework for multi-modal, multi-hop question answering, that compiles user NL queries into directed acyclic graph (DAG) execution plans spanning both structured and unstructured stores. The system decomposes queries into parallelizable sub-queries, incorporates schema-aware reasoning, and applies both structural and semantic validation before execution. The execution engine adheres to the generated DAG plan to coordinate concurrent retrieval across heterogeneous sources, route intermediate outputs to dependent sub-queries, and merge final results in strict accordance with the plan's logical dependencies. Advanced caching mechanisms, incorporating paraphrase-aware template matching, enable the system to detect equivalent queries and reuse prior DAG execution plans for rapid re-execution, while the DataOps System addresses validation feedback or execution errors. The proposed framework not only improves accuracy and latency, but also produces explicit evidence trails, enabling verification of retrieved content, tracing of data lineage, and fostering user trust in the system's outputs. On benchmark dataset, A.DOT achieves 14.8% absolute gain in correctness and 10.7% in completeness over baselines.

FinRule-Bench: A Benchmark for Joint Reasoning over Financial Tables and Principles

Large language models (LLMs) are increasingly applied to financial analysis, yet their ability to audit structured financial statements under explicit accounting principles remains poorly explored. Existing benchmarks primarily evaluate question answering, numerical reasoning, or anomaly detection on synthetically corrupted data, making it unclear whether models can reliably verify or localize rule compliance on correct financial statements. We introduce FinRule-Bench, a benchmark for evaluating diagnostic completeness in rule-based financial reasoning over real-world financial tables. FinRule-Bench pairs ground-truth financial statements with explicit, human-curated accounting principles and spans four canonical statement types: Balance Sheets, Cash Flow Statements, Income Statements, and Statements of Equity. The benchmark defines three auditing tasks that require progressively stronger reasoning capabilities: (i) rule verification, which tests compliance with a single principle; (ii) rule identification, which requires selecting the violated principle from a provided rule set; and (iii) joint rule diagnosis, which requires detecting and localizing multiple simultaneous violations at the record level. We evaluate LLMs under zero-shot and few-shot prompting, and introduce a causal-counterfactual reasoning protocol that enforces consistency between decisions, explanations, and counterfactual judgments. Across tasks and statement types, we find that while models perform well on isolated rule verification, performance degrades sharply for rule discrimination and multi-violation diagnosis. FinRule-Bench provides a principled and reproducible testbed for studying rule-governed reasoning, diagnostic coverage, and failure modes of LLMs in high-stakes financial analysis.

Semantic Risk Scoring of Aggregated Metrics: An AI-Driven Approach for Healthcare Data Governance

Large healthcare institutions typically operate multiple business intelligence (BI) teams segmented by domain, including clinical performance, fundraising, operations, and compliance. Due to HIPAA, FERPA, and IRB restrictions, these teams face challenges in sharing patient-level data needed for analytics. To mitigate this, A metric aggregation table is proposed, which is a precomputed, privacy-compliant summary. These abstractions enable decision-making without direct access to sensitive data. However, even aggregated metrics can inadvertently lead to privacy risks if constructed without rigorous safeguards. A modular AI framework is proposed that evaluates SQL-based metric definitions for potential overexposure using both semantic and syntactic features. Specifically, the system parses SQL queries into abstract syntax trees (ASTs), extracts sensitive patterns (e.g., fine-grained GROUP BY on ZIP code or gender), and encodes the logic using pretrained CodeBERT embeddings. These are fused with structural features and passed to an XGBoost classifier trained to assign risk scores. Queries that surpass the risk threshold (e.g., > 0.85) are flagged and returned with human-readable explanations. This enables proactive governance, preventing statistical disclosure before deployment. This implementation demonstrates strong potential for cross-departmental metric sharing in healthcare while maintaining compliance and auditability. The system also promotes role-based access control (RBAC), supports zero-trust data architectures, and aligns with national data modernization goals by ensuring that metric pipelines are explainable, privacy-preserving, and AI-auditable by design. Unlike prior works that rely on runtime data access to flag privacy violations, the proposed framework performs static, explainable detection at the query-level, enabling pre-execution protection and audit readiness

Autoregressive Synthesis of Sparse and Semi-Structured Mixed-Type Data

Synthetic data generation is a critical capability for data sharing, privacy compliance, system benchmarking and test data provisioning. Existing methods assume dense, fixed-schema tabular data, yet this assumption is increasingly at odds with modern data systems - from document databases, REST APIs to data lakes - which store and exchange data in sparse, semi-structured formats like JSON. Applying existing tabular methods to such data requires flattening of nested data into wide, sparse tables which scales poorly. We present Origami, an autoregressive transformer-based architecture that tokenizes data records, including nested objects and variable length arrays, into sequences of key, value and structural tokens. This representation natively handles sparsity, mixed types and hierarchical structure without flattening or imputation. Origami outperforms baselines spanning GAN, VAE, diffusion and autoregressive architectures on fidelity, utility and detection metrics across nearly all settings, while maintaining high privacy scores. On semi-structured datasets with up to 38% sparsity, baseline synthesizers either fail to scale or degrade substantially, while Origami maintains high-fidelity synthesis that is harder to distinguish from real data. To the best of our knowledge, Origami is the first architecture capable of natively modeling and generating semi-structured data end-to-end.

Automating Timed Up and Go Phase Segmentation and Gait Analysis via the tugturn Markerless 3D Pipeline

Instrumented Timed Up and Go (TUG) analysis can support clinical and research decision-making, but robust and reproducible markerless pipelines are still limited. We present \textit{tugturn.py}, a Python-based workflow for 3D markerless TUG processing that combines phase segmentation, gait-event detection, spatiotemporal metrics, intersegmental coordination, and dynamic stability analysis. The pipeline uses spatial thresholds to segment each trial into stand, first gait, turning, second gait, and sit phases, and applies a relative-distance strategy to detect heel-strike and toe-off events within valid gait windows. In addition to conventional kinematics, \textit{tugturn} provides Vector Coding outputs and Extrapolated Center of Mass (XCoM)-based metrics. The software is configured through TOML files and produces reproducible artifacts, including HTML reports, CSV tables, and quality-assurance visual outputs. A complete runnable example is provided with test data and command-line instructions. This manuscript describes the implementation, outputs, and reproducibility workflow of \textit{tugturn} as a focused software contribution for markerless biomechanical TUG analysis.

FMMD: A multimodal open peer review dataset based on F1000Research

Automated scholarly paper review (ASPR) has entered the coexistence phase with traditional peer review, where artificial intelligence (AI) systems are increasingly incorporated into real-world manuscript evaluation. In parallel, research on automated and AI-assisted peer review has proliferated. Despite this momentum, empirical progress remains constrained by several critical limitations in existing datasets. While reviewers routinely evaluate figures, tables, and complex layouts to assess scientific claims, most existing datasets remain overwhelmingly text-centric. This bias is reinforced by a narrow focus on data from computer science venues. Furthermore, these datasets lack precise alignment between reviewer comments and specific manuscript versions, obscuring the iterative relationship between peer review and manuscript evolution. In response, we introduce FMMD, a multimodal and multidisciplinary open peer review dataset curated from F1000Research. The dataset bridges the current gap by integrating manuscript-level visual and structural data with version-specific reviewer reports and editorial decisions. By providing explicit alignment between reviewer comments and the exact article iteration under review, FMMD enables fine-grained analysis of the peer review lifecycle across diverse scientific domains. FMMD supports tasks such as multimodal issue detection and multimodal review comment generation. It provides a comprehensive empirical resource for the development of peer review research.

FMBench: Adaptive Large Language Model Output Formatting

Producing outputs that satisfy both semantic intent and format constraints is essential for deploying large language models in user-facing and system-integrated workflows. In this work, we focus on Markdown formatting, which is ubiquitous in assistants, documentation, and tool-augmented pipelines but still prone to subtle, hard-to-detect errors (e.g., broken lists, malformed tables, inconsistent headings, and invalid code blocks) that can significantly degrade downstream usability. We present FMBench, a benchmark for adaptive Markdown output formatting that evaluates models under a wide range of instruction-following scenarios with diverse structural requirements. FMBench emphasizes real-world formatting behaviors such as multi-level organization, mixed content (natural language interleaved with lists/tables/code), and strict adherence to user-specified layout constraints. To improve Markdown compliance without relying on hard decoding constraints, we propose a lightweight alignment pipeline that combines supervised fine-tuning (SFT) with reinforcement learning fine-tuning. Starting from a base model, we first perform SFT on instruction-response pairs, and then optimize a composite objective that balances semantic fidelity with structural correctness. Experiments on two model families (OpenPangu and Qwen) show that SFT consistently improves semantic alignment, while reinforcement learning provides additional gains in robustness to challenging Markdown instructions when initialized from a strong SFT policy. Our results also reveal an inherent trade-off between semantic and structural objectives, highlighting the importance of carefully designed rewards for reliable formatted generation. Code is available at: https://github.com/FudanCVL/FMBench.