AgriGPT: a Large Language Model Ecosystem for Agriculture

Despite the rapid progress of Large Language Models (LLMs), their application in agriculture remains limited due to the lack of domain-specific models, curated datasets, and robust evaluation frameworks. To address these challenges, we propose AgriGPT, a domain-specialized LLM ecosystem for agricultural usage. At its core, we design a multi-agent scalable data engine that systematically compiles credible data sources into Agri-342K, a high-quality, standardized question-answer (QA) dataset. Trained on this dataset, AgriGPT supports a broad range of agricultural stakeholders, from practitioners to policy-makers. To enhance factual grounding, we employ Tri-RAG, a three-channel Retrieval-Augmented Generation framework combining dense retrieval, sparse retrieval, and multi-hop knowledge graph reasoning, thereby improving the LLM's reasoning reliability. For comprehensive evaluation, we introduce AgriBench-13K, a benchmark suite comprising 13 tasks with varying types and complexities. Experiments demonstrate that AgriGPT significantly outperforms general-purpose LLMs on both domain adaptation and reasoning. Beyond the model itself, AgriGPT represents a modular and extensible LLM ecosystem for agriculture, comprising structured data construction, retrieval-enhanced generation, and domain-specific evaluation. This work provides a generalizable framework for developing scientific and industry-specialized LLMs. All models, datasets, and code will be released to empower agricultural communities, especially in underserved regions, and to promote open, impactful research.

Deformable Attention Graph Representation Learning for Histopathology Whole Slide Image Analysis

Accurate classification of Whole Slide Images (WSIs) and Regions of Interest (ROIs) is a fundamental challenge in computational pathology. While mainstream approaches often adopt Multiple Instance Learning (MIL), they struggle to capture the spatial dependencies among tissue structures. Graph Neural Networks (GNNs) have emerged as a solution to model inter-instance relationships, yet most rely on static graph topologies and overlook the physical spatial positions of tissue patches. Moreover, conventional attention mechanisms lack specificity, limiting their ability to focus on structurally relevant regions. In this work, we propose a novel GNN framework with deformable attention for pathology image analysis. We construct a dynamic weighted directed graph based on patch features, where each node aggregates contextual information from its neighbors via attention-weighted edges. Specifically, we incorporate learnable spatial offsets informed by the real coordinates of each patch, enabling the model to adaptively attend to morphologically relevant regions across the slide. This design significantly enhances the contextual field while preserving spatial specificity. Our framework achieves state-of-the-art performance on four benchmark datasets (TCGA-COAD, BRACS, gastric intestinal metaplasia grading, and intestinal ROI classification), demonstrating the power of deformable attention in capturing complex spatial structures in WSIs and ROIs.

DicFace: Dirichlet-Constrained Variational Codebook Learning for Temporally Coherent Video Face Restoration

Video face restoration faces a critical challenge in maintaining temporal consistency while recovering fine facial details from degraded inputs. This paper presents a novel approach that extends Vector-Quantized Variational Autoencoders (VQ-VAEs), pretrained on static high-quality portraits, into a video restoration framework through variational latent space modeling. Our key innovation lies in reformulating discrete codebook representations as Dirichlet-distributed continuous variables, enabling probabilistic transitions between facial features across frames. A spatio-temporal Transformer architecture jointly models inter-frame dependencies and predicts latent distributions, while a Laplacian-constrained reconstruction loss combined with perceptual (LPIPS) regularization enhances both pixel accuracy and visual quality. Comprehensive evaluations on blind face restoration, video inpainting, and facial colorization tasks demonstrate state-of-the-art performance. This work establishes an effective paradigm for adapting intensive image priors, pretrained on high-quality images, to video restoration while addressing the critical challenge of flicker artifacts. The source code has been open-sourced and is available at https://github.com/fudan-generative-vision/DicFace.

Hallo4: High-Fidelity Dynamic Portrait Animation via Direct Preference Optimization and Temporal Motion Modulation

Generating highly dynamic and photorealistic portrait animations driven by audio and skeletal motion remains challenging due to the need for precise lip synchronization, natural facial expressions, and high-fidelity body motion dynamics. We propose a human-preference-aligned diffusion framework that addresses these challenges through two key innovations. First, we introduce direct preference optimization tailored for human-centric animation, leveraging a curated dataset of human preferences to align generated outputs with perceptual metrics for portrait motion-video alignment and naturalness of expression. Second, the proposed temporal motion modulation resolves spatiotemporal resolution mismatches by reshaping motion conditions into dimensionally aligned latent features through temporal channel redistribution and proportional feature expansion, preserving the fidelity of high-frequency motion details in diffusion-based synthesis. The proposed mechanism is complementary to existing UNet and DiT-based portrait diffusion approaches, and experiments demonstrate obvious improvements in lip-audio synchronization, expression vividness, body motion coherence over baseline methods, alongside notable gains in human preference metrics. Our model and source code can be found at: https://github.com/xyz123xyz456/hallo4.

Conversational Exploration of Literature Landscape with LitChat

We are living in an era of "big literature", where the volume of digital scientific publications is growing exponentially. While offering new opportunities, this also poses challenges for understanding literature landscapes, as traditional manual reviewing is no longer feasible. Recent large language models (LLMs) have shown strong capabilities for literature comprehension, yet they are incapable of offering "comprehensive, objective, open and transparent" views desired by systematic reviews due to their limited context windows and trust issues like hallucinations. Here we present LitChat, an end-to-end, interactive and conversational literature agent that augments LLM agents with data-driven discovery tools to facilitate literature exploration. LitChat automatically interprets user queries, retrieves relevant sources, constructs knowledge graphs, and employs diverse data-mining techniques to generate evidence-based insights addressing user needs. We illustrate the effectiveness of LitChat via a case study on AI4Health, highlighting its capacity to quickly navigate the users through large-scale literature landscape with data-based evidence that is otherwise infeasible with traditional means.

MetaMind: Modeling Human Social Thoughts with Metacognitive Multi-Agent Systems

Human social interactions depend on the ability to infer others' unspoken intentions, emotions, and beliefs-a cognitive skill grounded in the psychological concept of Theory of Mind (ToM). While large language models (LLMs) excel in semantic understanding tasks, they struggle with the ambiguity and contextual nuance inherent in human communication. To bridge this gap, we introduce MetaMind, a multi-agent framework inspired by psychological theories of metacognition, designed to emulate human-like social reasoning. MetaMind decomposes social understanding into three collaborative stages: (1) a Theory-of-Mind Agent generates hypotheses user mental states (e.g., intent, emotion), (2) a Domain Agent refines these hypotheses using cultural norms and ethical constraints, and (3) a Response Agent generates contextually appropriate responses while validating alignment with inferred intent. Our framework achieves state-of-the-art performance across three challenging benchmarks, with 35.7% improvement in real-world social scenarios and 6.2% gain in ToM reasoning. Notably, it enables LLMs to match human-level performance on key ToM tasks for the first time. Ablation studies confirm the necessity of all components, which showcase the framework's ability to balance contextual plausibility, social appropriateness, and user adaptation. This work advances AI systems toward human-like social intelligence, with applications in empathetic dialogue and culturally sensitive interactions. Code is available at https://github.com/XMZhangAI/MetaMind.

An Inclusive Foundation Model for Generalizable Cytogenetics in Precision Oncology

Chromosome analysis is vital for diagnosing genetic disorders and guiding cancer therapy decisions through the identification of somatic clonal aberrations. However, developing an AI model are hindered by the overwhelming complexity and diversity of chromosomal abnormalities, requiring extensive annotation efforts, while automated methods remain task-specific and lack generalizability due to the scarcity of comprehensive datasets spanning diverse resource conditions. Here, we introduce CHROMA, a foundation model for cytogenomics, designed to overcome these challenges by learning generalizable representations of chromosomal abnormalities. Pre-trained on over 84,000 specimens (~4 million chromosomal images) via self-supervised learning, CHROMA outperforms other methods across all types of abnormalities, even when trained on fewer labelled data and more imbalanced datasets. By facilitating comprehensive mapping of instability and clonal leisons across various aberration types, CHROMA offers a scalable and generalizable solution for reliable and automated clinical analysis, reducing the annotation workload for experts and advancing precision oncology through the early detection of rare genomic abnormalities, enabling broad clinical AI applications and making advanced genomic analysis more accessible.

MAGI: Multi-Agent Guided Interview for Psychiatric Assessment

Automating structured clinical interviews could revolutionize mental healthcare accessibility, yet existing large language models (LLMs) approaches fail to align with psychiatric diagnostic protocols. We present MAGI, the first framework that transforms the gold-standard Mini International Neuropsychiatric Interview (MINI) into automatic computational workflows through coordinated multi-agent collaboration. MAGI dynamically navigates clinical logic via four specialized agents: 1) an interview tree guided navigation agent adhering to the MINI's branching structure, 2) an adaptive question agent blending diagnostic probing, explaining, and empathy, 3) a judgment agent validating whether the response from participants meet the node, and 4) a diagnosis Agent generating Psychometric Chain-of- Thought (PsyCoT) traces that explicitly map symptoms to clinical criteria. Experimental results on 1,002 real-world participants covering depression, generalized anxiety, social anxiety and suicide shows that MAGI advances LLM- assisted mental health assessment by combining clinical rigor, conversational adaptability, and explainable reasoning.

Crisp: Cognitive Restructuring of Negative Thoughts through Multi-turn Supportive Dialogues

Cognitive Restructuring (CR) is a psychotherapeutic process aimed at identifying and restructuring an individual's negative thoughts, arising from mental health challenges, into more helpful and positive ones via multi-turn dialogues. Clinician shortage and stigma urge the development of human-LLM interactive psychotherapy for CR. Yet, existing efforts implement CR via simple text rewriting, fixed-pattern dialogues, or a one-shot CR workflow, failing to align with the psychotherapeutic process for effective CR. To address this gap, we propose CRDial, a novel framework for CR, which creates multi-turn dialogues with specifically designed identification and restructuring stages of negative thoughts, integrates sentence-level supportive conversation strategies, and adopts a multi-channel loop mechanism to enable iterative CR. With CRDial, we distill Crisp, a large-scale and high-quality bilingual dialogue dataset, from LLM. We then train Crispers, Crisp-based conversational LLMs for CR, at 7B and 14B scales. Extensive human studies show the superiority of Crispers in pointwise, pairwise, and intervention evaluations.

TransST: Transfer Learning Embedded Spatial Factor Modeling of Spatial Transcriptomics Data

Background: Spatial transcriptomics have emerged as a powerful tool in biomedical research because of its ability to capture both the spatial contexts and abundance of the complete RNA transcript profile in organs of interest. However, limitations of the technology such as the relatively low resolution and comparatively insufficient sequencing depth make it difficult to reliably extract real biological signals from these data. To alleviate this challenge, we propose a novel transfer learning framework, referred to as TransST, to adaptively leverage the cell-labeled information from external sources in inferring cell-level heterogeneity of a target spatial transcriptomics data. Results: Applications in several real studies as well as a number of simulation settings show that our approach significantly improves existing techniques. For example, in the breast cancer study, TransST successfully identifies five biologically meaningful cell clusters, including the two subgroups of cancer in situ and invasive cancer; in addition, only TransST is able to separate the adipose tissues from the connective issues among all the studied methods. Conclusions: In summary, the proposed method TransST is both effective and robust in identifying cell subclusters and detecting corresponding driving biomarkers in spatial transcriptomics data.