Deep Learning
Layerwise Importance Analysis of Feed-Forward Networks in Transformer-based Language Models
Ikeda, Wataru, Yano, Kazuki, Takahashi, Ryosuke, Lee, Jaesung, Shibata, Keigo, Suzuki, Jun
This study investigates the layerwise importance of feed-forward networks (FFNs) in Transformer-based language models during pretraining. We introduce an experimental approach that, while maintaining the total parameter count, increases the FFN dimensions in some layers and completely removes the FFNs from other layers. Furthermore, since our focus is on the importance of FFNs during pretraining, we train models from scratch to examine whether the importance of FFNs varies depending on their layer positions, rather than using publicly available pretrained models as is frequently done. Through comprehensive evaluations of models with varying sizes (285M, 570M, and 1.2B parameters) and layer counts (12, 24, and 40 layers), we demonstrate that concentrating FFNs in 70% of the consecutive middle layers consistently outperforms standard configurations for multiple downstream tasks.
Instant Preference Alignment for Text-to-Image Diffusion Models
Li, Yang, Yang, Songlin, Han, Xiaoxuan, Wang, Wei, Dong, Jing, Lyu, Yueming, Xue, Ziyu
Text-to-image (T2I) generation has greatly enhanced creative expression, yet achieving preference-aligned generation in a real-time and training-free manner remains challenging. Previous methods often rely on static, pre-collected preferences or fine-tuning, limiting adaptability to evolving and nuanced user intents. In this paper, we highlight the need for instant preference-aligned T2I generation and propose a training-free framework grounded in multimodal large language model (MLLM) priors. Our framework decouples the task into two components: preference understanding and preference-guided generation. For preference understanding, we leverage MLLMs to automatically extract global preference signals from a reference image and enrich a given prompt using structured instruction design. Our approach supports broader and more fine-grained coverage of user preferences than existing methods. For preference-guided generation, we integrate global keyword-based control and local region-aware cross-attention modulation to steer the diffusion model without additional training, enabling precise alignment across both global attributes and local elements. The entire framework supports multi-round interactive refinement, facilitating real-time and context-aware image generation. Extensive experiments on the Viper dataset and our collected benchmark demonstrate that our method outperforms prior approaches in both quantitative metrics and human evaluations, and opens up new possibilities for dialog-based generation and MLLM-diffusion integration.
EMPOWER: Evolutionary Medical Prompt Optimization With Reinforcement Learning
Chen, Yinda, He, Yangfan, Yang, Jing, Zhang, Dapeng, Yuan, Zhenlong, Khan, Muhammad Attique, Baili, Jamel, Yee, Por Lip
Prompt engineering significantly influences the reliability and clinical utility of Large Language Models (LLMs) in medical applications. Current optimization approaches inadequately address domain-specific medical knowledge and safety requirements. This paper introduces EMPOWER, a novel evolutionary framework that enhances medical prompt quality through specialized representation learning, multi-dimensional evaluation, and structure-preserving algorithms. Our methodology incorporates: (1) a medical terminology attention mechanism, (2) a comprehensive assessment architecture evaluating clarity, specificity, clinical relevance, and factual accuracy, (3) a component-level evolutionary algorithm preserving clinical reasoning integrity, and (4) a semantic verification module ensuring adherence to medical knowledge. Evaluation across diagnostic, therapeutic, and educational tasks demonstrates significant improvements: 24.7% reduction in factually incorrect content, 19.6% enhancement in domain specificity, and 15.3% higher clinician preference in blinded evaluations. The framework addresses critical challenges in developing clinically appropriate prompts, facilitating more responsible integration of LLMs into healthcare settings.
Adaptive Ensemble Learning with Gaussian Copula for Load Forecasting
Yang, Junying, Lu, Gang, Yan, Xiaoqing, Xia, Peng, Wu, Di
Machine learning (ML) is capable of accurate Load Forecasting from complete data. However, there are many uncertainties that affect data collection, leading to sparsity. This article proposed a model called Adaptive Ensemble Learning with Gaussian Copula to deal with sparsity, which contains three modules: data complementation, ML construction, and adaptive ensemble. First, it applies Gaussian Copula to eliminate sparsity. Then, we utilise five ML models to make predictions individually. Finally, it employs adaptive ensemble to get final weighted-sum result. Experiments have demonstrated that our model are robust.
LLM-based Agentic Reasoning Frameworks: A Survey from Methods to Scenarios
Zhao, Bingxi, Foo, Lin Geng, Hu, Ping, Theobalt, Christian, Rahmani, Hossein, Liu, Jun
Recent advances in the intrinsic reasoning capabilities of large language models (LLMs) have given rise to LLM-based agent systems that exhibit near-human performance on a variety of automated tasks. However, although these systems share similarities in terms of their use of LLMs, different reasoning frameworks of the agent system steer and organize the reasoning process in different ways. In this survey, we propose a systematic taxonomy that decomposes agentic reasoning frameworks and analyze how these frameworks dominate framework-level reasoning by comparing their applications across different scenarios. Specifically, we propose an unified formal language to further classify agentic reasoning systems into single-agent methods, tool-based methods, and multi-agent methods. After that, we provide a comprehensive review of their key application scenarios in scientific discovery, healthcare, software engineering, social simulation, and economics. We also analyze the characteristic features of each framework and summarize different evaluation strategies. Our survey aims to provide the research community with a panoramic view to facilitate understanding of the strengths, suitable scenarios, and evaluation practices of different agentic reasoning frameworks.
OwkinZero: Accelerating Biological Discovery with AI
Bigaud, Nathan, Cabeli, Vincent, Gรผrel, Meltem, Pignet, Arthur, Klein, John, Wainrib, Gilles, Durand, Eric
While large language models (LLMs) are rapidly advancing scientific research, they continue to struggle with core biological reasoning tasks essential for translational and biomedical discovery. To address this limitation, we created and curated eight comprehensive benchmark datasets comprising over 300,000 verifiable question-and-answer pairs, each targeting critical challenges in drug discovery including target druggability, modality suitability, and drug perturbation effects. Using this resource, we developed the OwkinZero models by post-training open-source LLMs through a Reinforcement Learning from Verifiable Rewards strategy. Our results demonstrate that specialized 8-32B OwkinZero models substantially outperform larger, state-of-the-art commercial LLMs on these biological benchmarks. Remarkably, we uncover evidence of a key aspect of generalization: specialist models trained on a single task consistently outperform their base models on previously unseen tasks. This generalization effect is further amplified in our comprehensive OwkinZero models, which were trained on a mixture of datasets and achieve even broader cross-task improvements. This study represents a significant step toward addressing the biological reasoning blind spot in current LLMs, demonstrating that targeted reinforcement learning on carefully curated data can unlock generalizable performance in specialized models, thereby accelerating AI-driven biological discovery.
Memento: Fine-tuning LLM Agents without Fine-tuning LLMs
Zhou, Huichi, Chen, Yihang, Guo, Siyuan, Yan, Xue, Lee, Kin Hei, Wang, Zihan, Lee, Ka Yiu, Zhang, Guchun, Shao, Kun, Yang, Linyi, Wang, Jun
In this paper, we introduce a novel learning paradigm for Adaptive Large Language Model (LLM) agents that eliminates the need for fine-tuning the underlying LLMs. Existing approaches are often either rigid, relying on static, handcrafted reflection workflows, or computationally intensive, requiring gradient updates of LLM model parameters. In contrast, our method enables low-cost continual adaptation via memory-based online reinforcement learning. We formalise this as a Memory-augmented Markov Decision Process (M-MDP), equipped with a neural case-selection policy to guide action decisions. Past experiences are stored in an episodic memory, either differentiable or non-parametric. The policy is continually updated based on environmental feedback through a memory rewriting mechanism, whereas policy improvement is achieved through efficient memory reading (retrieval). We instantiate our agent model in the deep research setting, namely \emph{Memento}, which attains top-1 on GAIA validation ($87.88\%$ Pass@$3$) and $79.40\%$ on the test set. It reaches $66.6\%$ F1 and $80.4\%$ PM on the DeepResearcher dataset, outperforming the state-of-the-art training-based method, while case-based memory adds $4.7\%$ to $9.6\%$ absolute points on out-of-distribution tasks. Our approach offers a scalable and efficient pathway for developing generalist LLM agents capable of continuous, real-time learning without gradient updates, advancing machine learning towards open-ended skill acquisition and deep research scenarios. The code is available at https://github.com/Agent-on-the-Fly/Memento.
Beyond Imaging: Vision Transformer Digital Twin Surrogates for 3D+T Biological Tissue Dynamics
Ugurlar, Kaan Berke, de Navascuรฉs, Joaquรญn, Barros, Michael Taynnan
Understanding the dynamic organization and homeostasis of living tissues requires high-resolution, time-resolved imaging coupled with methods capable of extracting interpretable, predictive insights from complex datasets. Here, we present the Vision Transformer Digital Twin Surrogate Network (VT-DTSN), a deep learning framework for predictive modeling of 3D+T imaging data from biological tissue. By leveraging Vision Transformers pretrained with DINO (Self-Distillation with NO Labels) and employing a multi-view fusion strategy, VT-DTSN learns to reconstruct high-fidelity, time-resolved dynamics of a Drosophila midgut while preserving morphological and feature-level integrity across imaging depths. The model is trained with a composite loss prioritizing pixel-level accuracy, perceptual structure, and feature-space alignment, ensuring biologically meaningful outputs suitable for in silico experimentation and hypothesis testing. Evaluation across layers and biological replicates demonstrates VT-DTSN's robustness and consistency, achieving low error rates and high structural similarity while maintaining efficient inference through model optimization. This work establishes VT-DTSN as a feasible, high-fidelity surrogate for cross-timepoint reconstruction and for studying tissue dynamics, enabling computational exploration of cellular behaviors and homeostasis to complement time-resolved imaging studies in biological research.
A BERT-based Hierarchical Classification Model with Applications in Chinese Commodity Classification
Liu, Kun, Liu, Tuozhen, Wang, Feifei, Pan, Rui
Existing e-commerce platforms heavily rely on manual annotation for product categorization, which is inefficient and inconsistent. These platforms often employ a hierarchical structure for categorizing products; however, few studies have leveraged this hierarchical information for classification. Furthermore, studies that consider hierarchical information fail to account for similarities and differences across various hierarchical categories. Herein, we introduce a large-scale hierarchical dataset collected from the JD e-commerce platform (www.JD.com), comprising 1,011,450 products with titles and a three-level category structure. By making this dataset openly accessible, we provide a valuable resource for researchers and practitioners to advance research and applications associated with product categorization. Moreover, we propose a novel hierarchical text classification approach based on the widely used Bidirectional Encoder Representations from Transformers (BERT), called Hierarchical Fine-tuning BERT (HFT-BERT). HFT-BERT leverages the remarkable text feature extraction capabilities of BERT, achieving prediction performance comparable to those of existing methods on short texts. Notably, our HFT-BERT model demonstrates exceptional performance in categorizing longer short texts, such as books.
PuzzleClone: An SMT-Powered Framework for Synthesizing Verifiable Data
Xiong, Kai, Huang, Yanwei, Zhang, Rongjunchen, Chen, Kun, Wu, Haipang
High-quality mathematical and logical datasets with verifiable answers are essential for strengthening the reasoning capabilities of large language models (LLMs). While recent data augmentation techniques have facilitated the creation of large-scale benchmarks, existing LLM-generated datasets often suffer from limited reliability, diversity, and scalability. To address these challenges, we introduce PuzzleClone, a formal framework for synthesizing verifiable data at scale using Satisfiability Modulo Theories (SMT). Our approach features three key innovations: (1) encoding seed puzzles into structured logical specifications, (2) generating scalable variants through systematic variable and constraint randomization, and (3) ensuring validity via a reproduction mechanism. Applying PuzzleClone, we construct a curated benchmark comprising over 83K diverse and programmatically validated puzzles. The generated puzzles span a wide spectrum of difficulty and formats, posing significant challenges to current state-of-the-art models. We conduct post training (SFT and RL) on PuzzleClone datasets. Experimental results show that training on PuzzleClone yields substantial improvements not only on PuzzleClone testset but also on logic and mathematical benchmarks. Post training raises PuzzleClone average from 14.4 to 56.2 and delivers consistent improvements across 7 logic and mathematical benchmarks up to 12.5 absolute percentage points (AMC2023 from 52.5 to 65.0). Our code and data are available at https://github.com/HiThink-Research/PuzzleClone.