OpenRaiser/Intern-Atlas huggingface dataset:
TractoGPT: A GPT architecture for White Matter Segmentation
Venue: arXiv cs.CV 2025
Year: 2025

White matter bundle segmentation is crucial for studying brain structural connectivity, neurosurgical planning, and neurological disorders. White Matter Segmentation remains challenging due to structural similarity in streamlines, subject variability, symmetry in 2 hemispheres, etc. To address these challenges, we propose TractoGPT, a GPT-based architecture trained on streamline, cluster, and fusion data representations separately. TractoGPT is a fully-automatic method that generalizes across datasets and retains shape information of the white matter bundles. Experiments also show that TractoGPT outperforms state-of-the-art methods on average DICE, Overlap and Overreach scores. We use TractoInferno and 105HCP datasets and validate generalization across dataset.
Query-based versus resource-based cache strategies in tag-based browsing systems
Venue: arXiv cs.CL 2025
Year: 2025

Tag-based browsing is a popular interaction model for navigating digital libraries. According to this model, users select descriptive tags to filter resources in the collections. Typical implementations of the model are based on inverted indexes. However, these implementations can require a considerable amount of set operations to update the browsing state. To palliate this inconven-ience, it is possible to adopt suitable cache strategies. In this paper we describe and compare two of these strategies: (i) a query-based strategy, according to which previously computed browsing states are indexed by sets of selected tags; and (ii) a resource-based strategy, according to which browsing states are in-dexed by sets of filtered resources. Our comparison focused on runtime perfor-mance, and was carried out empirically, using a real-world web-based collec-tion in the field of digital humanities. The results obtained show that the re-source-based strategy clearly outperforms the query-based one.
PhoTorch: A robust and generalized biochemical photosynthesis model fitting package based on PyTorch
Venue: arXiv cs.CE 2025
Year: 2025

Advancements in artificial intelligence (AI) have greatly benefited plant phenotyping and predictive modeling. However, unrealized opportunities exist in leveraging AI advancements in model parameter optimization for parameter fitting in complex biophysical models. This work developed novel software, PhoTorch, for fitting parameters of the Farquhar, von Caemmerer, and Berry (FvCB) biochemical photosynthesis model based the parameter optimization components of the popular AI framework PyTorch. The primary novelty of the software lies in its computational efficiency, robustness of parameter estimation, and flexibility in handling different types of response curves and sub-model functional forms. PhoTorch can fit both steady-state and non-steady-state gas exchange data with high efficiency and accuracy. Its flexibility allows for optional fitting of temperature and light response parameters, and can simultaneously fit light response curves and standard A/Ci curves. These features are not available within presently available A/Ci curve fitting packages. Results illustrated the robustness and efficiency of PhoTorch in fitting A/Ci curves with high variability and some level of artifacts and noise. PhoTorch is more than four times faster than benchmark software, which may be relevant when processing many non-steady-state A/Ci curves with hundreds of data points per curve. PhoTorch provides researchers from various fields with a reliable and efficient tool for analyzing photosynthetic data. The Python package is openly accessible from the repository: https://github.com/GEMINI-Breeding/photorch.
A Critical Field Guide for Working with Machine Learning Datasets
Venue: arXiv cs.CY 2025
Year: 2025

Machine learning datasets are powerful but unwieldy. Despite the fact that large datasets commonly contain problematic material--whether from a technical, legal, or ethical perspective--datasets are valuable resources when handled carefully and critically. A Critical Field Guide for Working with Machine Learning Datasets suggests practical guidance for conscientious dataset stewardship. It offers questions, suggestions, strategies, and resources for working with existing machine learning datasets at every phase of their lifecycle. It combines critical AI theories and applied data science concepts, explained in accessible language. Equipped with this understanding, students, journalists, artists, researchers, and developers can be more capable of avoiding the problems unique to datasets. They can also construct more reliable, robust solutions, or even explore new ways of thinking with machine learning datasets that are more critical and conscientious.
BoTier: Multi-Objective Bayesian Optimization with Tiered Composite Objectives
Venue: arXiv cs.LG 2025
Year: 2025

Scientific optimization problems are usually concerned with balancing multiple competing objectives, which come as preferences over both the outcomes of an experiment (e.g. maximize the reaction yield) and the corresponding input parameters (e.g. minimize the use of an expensive reagent). Typically, practical and economic considerations define a hierarchy over these objectives, which must be reflected in algorithms for sample-efficient experiment planning. Herein, we introduce BoTier, a composite objective that can flexibly represent a hierarchy of preferences over both experiment outcomes and input parameters. We provide systematic benchmarks on synthetic and real-life surfaces, demonstrating the robust applicability of BoTier across a number of use cases. Importantly, BoTier is implemented in an auto-differentiable fashion, enabling seamless integration with the BoTorch library, thereby facilitating adoption by the scientific community.
CE-SDWV: Effective and Efficient Concept Erasure for Text-to-Image Diffusion Models via a Semantic-Driven Word Vocabulary
Venue: arXiv cs.CV 2025
Year: 2025

Large-scale text-to-image (T2I) diffusion models have achieved remarkable generative performance about various concepts. With the limitation of privacy and safety in practice, the generative capability concerning NSFW (Not Safe For Work) concepts is undesirable, e.g., producing sexually explicit photos, and licensed images. The concept erasure task for T2I diffusion models has attracted considerable attention and requires an effective and efficient method. To achieve this goal, we propose a CE-SDWV framework, which removes the target concepts (e.g., NSFW concepts) of T2I diffusion models in the text semantic space by only adjusting the text condition tokens and does not need to re-train the original T2I diffusion model's weights. Specifically, our framework first builds a target concept-related word vocabulary to enhance the representation of the target concepts within the text semantic space, and then utilizes an adaptive semantic component suppression strategy to ablate the target concept-related semantic information in the text condition tokens. To further adapt the above text condition tokens to the original image semantic space, we propose an end-to-end gradient-orthogonal token optimization strategy. Extensive experiments on I2P and UnlearnCanvas benchmarks demonstrate the effectiveness and efficiency of our method. Code is available at https://github.com/TtuHamg/CE-SDWV.
Cross-Cultural Fashion Design via Interactive Large Language Models and Diffusion Models
Venue: arXiv cs.CL 2025
Year: 2025

Fashion content generation is an emerging area at the intersection of artificial intelligence and creative design, with applications ranging from virtual try-on to culturally diverse design prototyping. Existing methods often struggle with cultural bias, limited scalability, and alignment between textual prompts and generated visuals, particularly under weak supervision. In this work, we propose a novel framework that integrates Large Language Models (LLMs) with Latent Diffusion Models (LDMs) to address these challenges. Our method leverages LLMs for semantic refinement of textual prompts and introduces a weak supervision filtering module to effectively utilize noisy or weakly labeled data. By fine-tuning the LDM on an enhanced DeepFashion+ dataset enriched with global fashion styles, the proposed approach achieves state-of-the-art performance. Experimental results demonstrate that our method significantly outperforms baselines, achieving lower Frechet Inception Distance (FID) and higher Inception Scores (IS), while human evaluations confirm its ability to generate culturally diverse and semantically relevant fashion content. These results highlight the potential of LLM-guided diffusion models in driving scalable and inclusive AI-driven fashion innovation.
Assessing and Predicting Air Pollution in Asia: A Regional and Temporal Study (2018-2023)
Venue: arXiv cs.LG 2025
Year: 2025

This study analyzes and predicts air pollution in Asia, focusing on PM 2.5 levels from 2018 to 2023 across five regions: Central, East, South, Southeast, and West Asia. South Asia emerged as the most polluted region, with Bangladesh, India, and Pakistan consistently having the highest PM 2.5 levels and death rates, especially in Nepal, Pakistan, and India. East Asia showed the lowest pollution levels. K-means clustering categorized countries into high, moderate, and low pollution groups. The ARIMA model effectively predicted 2023 PM 2.5 levels (MAE: 3.99, MSE: 33.80, RMSE: 5.81, R: 0.86). The findings emphasize the need for targeted interventions to address severe pollution and health risks in South Asia.
Quantum-Enhanced Attention Mechanism in NLP: A Hybrid Classical-Quantum Approach
Venue: arXiv cs.CL 2025
Year: 2025

Recent advances in quantum computing have opened new pathways for enhancing deep learning architectures, particularly in domains characterized by high-dimensional and context-rich data such as natural language processing (NLP). In this work, we present a hybrid classical-quantum Transformer model that integrates a quantum-enhanced attention mechanism into the standard classical architecture. By embedding token representations into a quantum Hilbert space via parameterized variational circuits and exploiting entanglement-aware kernel similarities, the model captures complex semantic relationships beyond the reach of conventional dot-product attention. We demonstrate the effectiveness of this approach across diverse NLP benchmarks, showing improvements in both efficiency and representational capacity. The results section reveal that the quantum attention layer yields globally coherent attention maps and more separable latent features, while requiring comparatively fewer parameters than classical counterparts. These findings highlight the potential of quantum-classical hybrid models to serve as a powerful and resource-efficient alternative to existing attention mechanisms in NLP.
IP-Prompter: Training-Free Theme-Specific Image Generation via Dynamic Visual Prompting
Venue: arXiv cs.CV 2025
Year: 2025

The stories and characters that captivate us as we grow up shape unique fantasy worlds, with images serving as the primary medium for visually experiencing these realms. Personalizing generative models through fine-tuning with theme-specific data has become a prevalent approach in text-to-image generation. However, unlike object customization, which focuses on learning specific objects, theme-specific generation encompasses diverse elements such as characters, scenes, and objects. Such diversity also introduces a key challenge: how to adaptively generate multi-character, multi-concept, and continuous theme-specific images (TSI). Moreover, fine-tuning approaches often come with significant computational overhead, time costs, and risks of overfitting. This paper explores a fundamental question: Can image generation models directly leverage images as contextual input, similarly to how large language models use text as context? To address this, we present IP-Prompter, a novel training-free TSI generation method. IP-Prompter introduces visual prompting, a mechanism that integrates reference images into generative models, allowing users to seamlessly specify the target theme without requiring additional training. To further enhance this process, we propose a Dynamic Visual Prompting (DVP) mechanism, which iteratively optimizes visual prompts to improve the accuracy and quality of generated images. Our approach enables diverse applications, including consistent story generation, character design, realistic character generation, and style-guided image generation. Comparative evaluations against state-of-the-art personalization methods demonstrate that IP-Prompter achieves significantly better results and excels in maintaining character identity preserving, style consistency and text alignment, offering a robust and flexible solution for theme-specific image generation.
Exploring the Feasibility of Deep Learning Models for Long-term Disease Prediction: A Case Study for Wheat Yellow Rust in England
Venue: arXiv cs.LG 2025
Year: 2025

Wheat yellow rust, caused by the fungus Puccinia striiformis, is a critical disease affecting wheat crops across Britain, leading to significant yield losses and economic consequences. Given the rapid environmental changes and the evolving virulence of pathogens, there is a growing need for innovative approaches to predict and manage such diseases over the long term. This study explores the feasibility of using deep learning models to predict outbreaks of wheat yellow rust in British fields, offering a proactive approach to disease management. We construct a yellow rust dataset with historial weather information and disease indicator acrossing multiple regions in England. We employ two poweful deep learning models, including fully connected neural networks and long short-term memory to develop predictive models capable of recognizing patterns and predicting future disease outbreaks.The models are trained and validated in a randomly sliced datasets. The performance of these models with different predictive time steps are evaluated based on their accuracy, precision, recall, and F1-score. Preliminary results indicate that deep learning models can effectively capture the complex interactions between multiple factors influencing disease dynamics, demonstrating a promising capacity to forecast wheat yellow rust with considerable accuracy. Specifically, the fully-connected neural network achieved 83.65% accuracy in a disease prediction task with 6 month predictive time step setup. These findings highlight the potential of deep learning to transform disease management strategies, enabling earlier and more precise interventions. Our study provides a methodological framework for employing deep learning in agricultural settings but also opens avenues for future research to enhance the robustness and applicability of predictive models in combating crop diseases globally.
An Empirical Study on Decision-Making Aspects in Responsible Software Engineering for AI
Venue: arXiv cs.SE 2025
Year: 2025

Incorporating responsible practices into software engineering (SE) for AI is essential to ensure ethical principles, societal impact, and accountability remain at the forefront of AI system design and deployment. This study investigates the ethical challenges and complexities inherent in responsible software engineering (RSE) for AI, underscoring the need for practical,scenario-driven operational guidelines. Given the complexity of AI and the relative inexperience of professionals in this rapidly evolving field, continuous learning and market adaptation are crucial. Through qualitative interviews with seven practitioners(conducted until saturation), quantitative surveys of 51 practitioners, and static validation of results with four industry experts in AI, this study explores how personal values, emerging roles, and awareness of AIs societal impact influence responsible decision-making in RSE for AI. A key finding is the gap between the current state of the art and actual practice in RSE for AI, particularly in the failure to operationalize ethical and responsible decision-making within the software engineering life cycle for AI. While ethical issues in RSE for AI largely mirror those found in broader SE process, the study highlights a distinct lack of operational frameworks and resources to guide RSE practices for AI effectively. The results reveal that current ethical guidelines are insufficiently implemented at the operational level, reinforcing the complexity of embedding ethics throughout the software engineering life cycle. The study concludes that interdisciplinary collaboration, H-shaped competencies(Ethical-Technical dual competence), and a strong organizational culture of ethics are critical for fostering RSE practices for AI, with a particular focus on transparency and accountability.
Adapting Biomedical Abstracts into Plain language using Large Language Models
Venue: arXiv cs.CL 2025
Year: 2025

A vast amount of medical knowledge is available for public use through online health forums, and question-answering platforms on social media. The majority of the population in the United States doesn't have the right amount of health literacy to make the best use of that information. Health literacy means the ability to obtain and comprehend the basic health information to make appropriate health decisions. To build the bridge between this gap, organizations advocate adapting this medical knowledge into plain language. Building robust systems to automate the adaptations helps both medical and non-medical professionals best leverage the available information online. The goal of the Plain Language Adaptation of Biomedical Abstracts (PLABA) track is to adapt the biomedical abstracts in English language extracted from PubMed based on the questions asked in MedlinePlus for the general public using plain language at the sentence level. As part of this track, we leveraged the best open-source Large Language Models suitable and fine-tuned for dialog use cases. We compare and present the results for all of our systems and our ranking among the other participants' submissions. Our top performing GPT-4 based model ranked first in the avg. simplicity measure and 3rd on the avg. accuracy measure.
StaICC: Standardized Evaluation for Classification Task in In-context Learning
Venue: arXiv cs.CL 2025
Year: 2025

Classification tasks are widely investigated in the In-Context Learning (ICL) paradigm. However, current efforts are evaluated on disjoint benchmarks and settings, while their performances are significantly influenced by some trivial variables, such as prompt templates, data sampling, instructions, etc., which leads to significant inconsistencies in the results reported across various literature, preventing fair comparison or meta-analysis across different papers. Therefore, this paper proposes a standardized and easy-to-use evaluation toolkit (StaICC) for in-context classification. Including, for the normal classification task, we provide StaICC-Normal, selecting 10 widely used datasets, and generating prompts with a fixed form, to mitigate the variance among the experiment implementations. To enrich the usage of our benchmark, we also provide a sub-benchmark StaICC-Diag for diagnosing ICL from several aspects, aiming for a more robust inference processing.
DanmuA11y: Making Time-Synced On-Screen Video Comments (Danmu) Accessible to Blind and Low Vision Users via Multi-Viewer Audio Discussions
Venue: arXiv cs.HC 2025
Year: 2025

By overlaying time-synced user comments on videos, Danmu creates a co-watching experience for online viewers. However, its visual-centric design poses significant challenges for blind and low vision (BLV) viewers. Our formative study identified three primary challenges that hinder BLV viewers' engagement with Danmu: the lack of visual context, the speech interference between comments and videos, and the disorganization of comments. To address these challenges, we present DanmuA11y, a system that makes Danmu accessible by transforming it into multi-viewer audio discussions. DanmuA11y incorporates three core features: (1) Augmenting Danmu with visual context, (2) Seamlessly integrating Danmu into videos, and (3) Presenting Danmu via multi-viewer discussions. Evaluation with twelve BLV viewers demonstrated that DanmuA11y significantly improved Danmu comprehension, provided smooth viewing experiences, and fostered social connections among viewers. We further highlight implications for enhancing commentary accessibility in video-based social media and live-streaming platforms.
Physics-Aware Decoding for Communication Channels Governed by Partial Differential Equations
Venue: arXiv cs.IT 2025
Year: 2025

Digital communication systems inherently operate through physical media governed by partial differential equations (PDEs). In this paper, we introduce a physics-aware decoding framework that integrates gradient descent-based error correcting algorithms with PDE-based channel modeling using differentiable PDE solvers. At the core of our approach is gradient flow decoding, which harnesses gradient information directly from the PDE solver to guide the decoding process. We validate our method through numerical experiments on both the heat equation and the nonlinear Schrödinger equation (NLSE), demonstrating significant improvements in decoding performance. The implications of this work extend beyond decoding applications, establishing a new paradigm for physics-aware signal processing that shows promise for various signal detection and signal recovery tasks.
CENSOR: Defense Against Gradient Inversion via Orthogonal Subspace Bayesian Sampling
Venue: arXiv cs.LG 2025
Year: 2025

Federated learning collaboratively trains a neural network on a global server, where each local client receives the current global model weights and sends back parameter updates (gradients) based on its local private data. The process of sending these model updates may leak client's private data information. Existing gradient inversion attacks can exploit this vulnerability to recover private training instances from a client's gradient vectors. Recently, researchers have proposed advanced gradient inversion techniques that existing defenses struggle to handle effectively. In this work, we present a novel defense tailored for large neural network models. Our defense capitalizes on the high dimensionality of the model parameters to perturb gradients within a subspace orthogonal to the original gradient. By leveraging cold posteriors over orthogonal subspaces, our defense implements a refined gradient update mechanism. This enables the selection of an optimal gradient that not only safeguards against gradient inversion attacks but also maintains model utility. We conduct comprehensive experiments across three different datasets and evaluate our defense against various state-of-the-art attacks and defenses. Code is available at https://censor-gradient.github.io.