Accurate protein structures are essential for understanding biological function, yet incorporating experimental data into protein generative models remains a major challenge. Most predictors of experimental observables are non-differentiable, making them incompatible with gradient-based conditional sampling. This is especially limiting in nuclear magnetic resonance, where rich data such as chemical shifts are hard to directly integrate into generative modeling. We introduce a framework for non-differentiable guidance of protein generative models, coupling a continuous diffusion-based generator with any black-box objective via a tailored genetic algorithm. We demonstrate its effectiveness across three modalities: pairwise distance constraints, nuclear Overhauser effect restraints, and for the first time chemical shifts. These results establish chemical shift guided structure generation as feasible, expose key weaknesses in current predictors, and showcase a general strategy for incorporating diverse experimental signals. Our work points toward automated, data-conditioned protein modeling beyond the limits of differentiability.

Ultrasound imaging is one of the most widely used diagnostic modalities, offering real-time, radiation-free assessment across diverse clinical domains. However, interpretation of ultrasound images remains challenging due to high noise levels, operator dependence, and limited field of view, resulting in substantial inter-observer variability. Current Deep Learning approaches are hindered by the scarcity of large labeled datasets and the domain gap between general and sonographic images, which limits the transferability of models pretrained on non-medical data. To address these challenges, we introduce the Ultrasound Self-Supervised Foundation Model with Masked Autoencoding (USF-MAE), the first large-scale self-supervised MAE framework pretrained exclusively on ultrasound data. The model was pre-trained on 370,000 2D and 3D ultrasound images curated from 46 open-source datasets, collectively termed OpenUS-46, spanning over twenty anatomical regions. This curated dataset has been made publicly available to facilitate further research and reproducibility. Using a Vision Transformer encoder-decoder architecture, USF-MAE reconstructs masked image patches, enabling it to learn rich, modality-specific representations directly from unlabeled data. The pretrained encoder was fine-tuned on three public downstream classification benchmarks: BUS-BRA (breast cancer), MMOTU-2D (ovarian tumors), and GIST514-DB (gastrointestinal stromal tumors). Across all tasks, USF-MAE consistently outperformed conventional CNN and ViT baselines, achieving F1-scores of 81.6%, 79.6%, and 82.4%, respectively. Despite not using labels during pretraining, USF-MAE approached the performance of the supervised foundation model UltraSam on breast cancer classification and surpassed it on the other tasks, demonstrating strong cross-anatomical generalization.

In various scenarios such as multi-drone surveillance and search-and-rescue operations, deploying multiple robots is essential to accomplish multiple tasks at once. Due to the limited communication range of these vehicles, a decentralised task allocation algorithm is crucial for effective task distribution among robots. The consensus-based bundle algorithm (CBBA) has been promising for multi-robot operation, offering theoretical guarantees. However, CBBA demands continuous communication, leading to potential congestion and packet loss that can hinder performance. In this study, we introduce an event-driven communication mechanism designed to address these communication challenges while maintaining the convergence and performance bounds of CBBA. We demonstrate theoretically that the solution quality matches that of CBBA and validate the approach with Monte-Carlo simulations across varying targets, agents, and bundles. Results indicate that the proposed algorithm (ED-CBBA) can reduce message transmissions by up to 52%.

With the growing capabilities of large language models (LLMs), they are increasingly applied in areas like intelligent customer service, code generation, and knowledge management. Natural language (NL) prompts act as the ``APIs'' for human-LLM interaction. To improve prompt quality, best practices for prompt engineering (PE) have been developed, including writing guidelines and templates. Building on this, we propose Controlled NL for Prompt (CNL-P), which not only incorporates PE best practices but also draws on key principles from software engineering (SE). CNL-P introduces precise grammar structures and strict semantic norms, further eliminating NL's ambiguity, allowing for a declarative but structured and accurate expression of user intent. This helps LLMs better interpret and execute the prompts, leading to more consistent and higher-quality outputs. We also introduce an NL2CNL-P conversion tool based on LLMs, enabling users to write prompts in NL, which are then transformed into CNL-P format, thus lowering the learning curve of CNL-P. In particular, we develop a linting tool that checks CNL-P prompts for syntactic and semantic accuracy, applying static analysis techniques to NL for the first time. Extensive experiments demonstrate that CNL-P enhances the quality of LLM responses through the novel and organic synergy of PE and SE. We believe that CNL-P can bridge the gap between emerging PE and traditional SE, laying the foundation for a new programming paradigm centered around NL.

With the increasing demand for heterogeneous Unmanned Aerial Vehicle (UAV) swarms to perform complex tasks in urban environments, system design now faces major challenges, including efficient semantic understanding, flexible task planning, and the ability to dynamically adjust coordination strategies in response to evolving environmental conditions and continuously changing task requirements. To address the limitations of existing methods, this paper proposes CoordField, a coordination field agent system for coordinating heterogeneous drone swarms in complex urban scenarios. In this system, large language models (LLMs) is responsible for interpreting high-level human instructions and converting them into executable commands for the UAV swarms, such as patrol and target tracking. Subsequently, a Coordination field mechanism is proposed to guide UAV motion and task selection, enabling decentralized and adaptive allocation of emergent tasks. A total of 50 rounds of comparative testing were conducted across different models in a 2D simulation space to evaluate their performance. Experimental results demonstrate that the proposed system achieves superior performance in terms of task coverage, response time, and adaptability to dynamic changes.

Data augmentation is a central component of joint embedding self-supervised learning (SSL). Approaches that work for natural images may not always be effective in medical imaging tasks. This study systematically investigated the impact of data augmentation and preprocessing strategies in SSL for lung ultrasound. Three data augmentation pipelines were assessed: (1) a baseline pipeline commonly used across imaging domains, (2) a novel semantic-preserving pipeline designed for ultrasound, and (3) a distilled set of the most effective transformations from both pipelines. Pretrained models were evaluated on multiple classification tasks: B-line detection, pleural effusion detection, and COVID-19 classification. Experiments revealed that semantics-preserving data augmentation resulted in the greatest performance for COVID-19 classification - a diagnostic task requiring global image context. Cropping-based methods yielded the greatest performance on the B-line and pleural effusion object classification tasks, which require strong local pattern recognition. Lastly, semantics-preserving ultrasound image preprocessing resulted in increased downstream performance for multiple tasks. Guidance regarding data augmentation and preprocessing strategies was synthesized for practitioners working with SSL in ultrasound.

Deep learning has revolutionized email filtering, which is critical to protect users from cyber threats such as spam, malware, and phishing. However, the increasing sophistication of adversarial attacks poses a significant challenge to the effectiveness of these filters. This study investigates the impact of adversarial attacks on deep learning-based spam detection systems using real-world datasets. Six prominent deep learning models are evaluated on these datasets, analyzing attacks at the word, character sentence, and AIgenerated paragraph-levels. Novel scoring functions, including spam weights and attention weights, are introduced to improve attack effectiveness. This comprehensive analysis sheds light on the vulnerabilities of spam filters and contributes to efforts to improve their security against evolving adversarial threats. Introduction Deep learning has seen significant advancements in the field of natural language processing (NLP), particularly in tasks such as ...

We propose a new algorithm for variance reduction when estimating $f(X_T)$ where $X$ is the solution to some stochastic differential equation and $f$ is a test function. The new estimator is $(f(X^1_T) + f(X^2_T))/2$, where $X^1$ and $X^2$ have same marginal law as $X$ but are pathwise correlated so that to reduce the variance. The optimal correlation function $\rho$ is approximated by a deep neural network and is calibrated along the trajectories of $(X^1, X^2)$ by policy gradient and reinforcement learning techniques. Finding an optimal coupling given marginal laws has links with maximum optimal transport.

Ultrasound (US) is one of the most widely used modalities for clinical intervention and diagnosis due to the merits of providing non-invasive, radiation-free, and real-time images. However, free-hand US examinations are highly operator-dependent. Robotic US System (RUSS) aims at overcoming this shortcoming by offering reproducibility, while also aiming at improving dexterity, and intelligent anatomy and disease-aware imaging. In addition to enhancing diagnostic outcomes, RUSS also holds the potential to provide medical interventions for populations suffering from the shortage of experienced sonographers. In this paper, we categorize RUSS as teleoperated or autonomous. Regarding teleoperated RUSS, we summarize their technical developments, and clinical evaluations, respectively. This survey then focuses on the review of recent work on autonomous robotic US imaging. We demonstrate that machine learning and artificial intelligence present the key techniques, which enable intelligent patient and process-specific, motion and deformation-aware robotic image acquisition. We also show that the research on artificial intelligence for autonomous RUSS has directed the research community toward understanding and modeling expert sonographers' semantic reasoning and action. Here, we call this process, the recovery of the "language of sonography". This side result of research on autonomous robotic US acquisitions could be considered as valuable and essential as the progress made in the robotic US examination itself. This article will provide both engineers and clinicians with a comprehensive understanding of RUSS by surveying underlying techniques.

We demonstrate that it is possible to use deep neural networks to produce tomographic reconstructions of dense layered objects with small illumination angle as low as 10 . It is also shown that a DNN trained on synthetic data can generalize well to and produce reconstructions from experimental measurements. This work has application in the field of X-ray tomography for the inspection of integrated circuits and other materials studies. We present a machine learning-based method for tomographic reconstruction of dense layered objects, with range of projection angles limited to 10 . Whereas previous approaches to phase tomography generally require 2 steps, first to retrieve phase projections from intensity projections and then to perform tomographic reconstruction on the retrieved phase projections, in our work a physics-informed preprocessor followed by a deep neural network (DNN) conduct the 3-dimensional reconstruction directly from the intensity projections. We demonstrate this single-step method experimentally in the visible optical domain on a scaled-up integrated circuit phantom. We show that even under conditions of highly attenuated photon fluxes a DNN trained only on synthetic data can be used to successfully reconstruct physical samples disjoint from the synthetic training set. Thus, the need for producing a large number of physical examples for training is ameliorated. The method is generally applicable to tomography with electromagnetic or other types of radiation at all bands. Tomography is the quintessential inverse problem.