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Researcher profile

Qingsong Yao

Qingsong Yao contributes to research discovery and scholarly infrastructure.

ResearcherAffiliation not importedOpen to collaborate
Computer VisionArtificial Intelligenceeess.IV

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Published work

8 published item(s)

preprint2026arXiv

PDEAgent-Bench: A Multi-Metric, Multi-Library Benchmark for PDE Solver Generation

PDE-to-solver code generation aims to automatically synthesize executable numerical solvers from partial differential equation (PDE) specifications. This task requires not only understanding the mathematical structure of PDEs, but also selecting appropriate discretization schemes and solver configurations, and correctly implementing the resulting formulations in finite-element method (FEM) libraries. Existing code generation benchmarks mainly evaluate syntactic correctness, or success on predefined test cases. To our knowledge, there is currently no publicly available benchmark specifically for PDE-to-solver code generation, and general-purpose code benchmarks do not fully capture the unique challenges of numerical PDE solution, such as ensuring solver accuracy, efficiency, and compatibility with professional FEM libraries. We introduce PDEAgent-Bench, to the best of our knowledge, the first multi-metric, multi-library benchmark for PDE-to-solver code generation. PDEAgent-Bench contains 645 instances across 6 mathematical categories and 11 PDE families, with common FEM libraries for DOLFINx, Firedrake, and deal.II. Each instance provides an agent-facing problem specification, a reference solution on a prescribed evaluation grid, and case-specific accuracy and runtime targets. PDEAgent-Bench adopts a staged evaluation framework in which generated solvers must sequentially pass executability, numerical accuracy, and computational efficiency checks. Experiments with representative LLMs and code agents show that models can often produce runnable code, but their pass rate drops substantially once accuracy and efficiency requirements are enforced. These results indicate that current agents remain limited in producing numerically reliable and efficient PDE solvers, and that PDEAgent-Bench provides a reproducible testbed grounded in the practical requirements of numerical PDE solving.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

DATR: Domain-adaptive transformer for multi-domain landmark detection

Accurate anatomical landmark detection plays an increasingly vital role in medical image analysis. Although existing methods achieve satisfying performance, they are mostly based on CNN and specialized for a single domain say associated with a particular anatomical region. In this work, we propose a universal model for multi-domain landmark detection by taking advantage of transformer for modeling long dependencies and develop a domain-adaptive transformer model, named as DATR, which is trained on multiple mixed datasets from different anatomies and capable of detecting landmarks of any image from those anatomies. The proposed DATR exhibits three primary features: (i) It is the first universal model which introduces transformer as an encoder for multi-anatomy landmark detection; (ii) We design a domain-adaptive transformer for anatomy-aware landmark detection, which can be effectively extended to any other transformer network; (iii) Following previous studies, we employ a light-weighted guidance network, which encourages the transformer network to detect more accurate landmarks. We carry out experiments on three widely used X-ray datasets for landmark detection, which have 1,588 images and 62 landmarks in total, including three different anatomies (head, hand, and chest). Experimental results demonstrate that our proposed DATR achieves state-of-the-art performances by most metrics and behaves much better than any previous convolution-based models. The code will be released publicly.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Medical Aegis: Robust adversarial protectors for medical images

Deep neural network based medical image systems are vulnerable to adversarial examples. Many defense mechanisms have been proposed in the literature, however, the existing defenses assume a passive attacker who knows little about the defense system and does not change the attack strategy according to the defense. Recent works have shown that a strong adaptive attack, where an attacker is assumed to have full knowledge about the defense system, can easily bypass the existing defenses. In this paper, we propose a novel adversarial example defense system called Medical Aegis. To the best of our knowledge, Medical Aegis is the first defense in the literature that successfully addresses the strong adaptive adversarial example attacks to medical images. Medical Aegis boasts two-tier protectors: The first tier of Cushion weakens the adversarial manipulation capability of an attack by removing its high-frequency components, yet posing a minimal effect on classification performance of the original image; the second tier of Shield learns a set of per-class DNN models to predict the logits of the protected model. Deviation from the Shield's prediction indicates adversarial examples. Shield is inspired by the observations in our stress tests that there exist robust trails in the shallow layers of a DNN model, which the adaptive attacks can hardly destruct. Experimental results show that the proposed defense accurately detects adaptive attacks, with negligible overhead for model inference.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Relative distance matters for one-shot landmark detection

Contrastive learning based methods such as cascade comparing to detect (CC2D) have shown great potential for one-shot medical landmark detection. However, the important cue of relative distance between landmarks is ignored in CC2D. In this paper, we upgrade CC2D to version II by incorporating a simple-yet-effective relative distance bias in the training stage, which is theoretically proved to encourage the encoder to project the relatively distant landmarks to the embeddings with low similarities. As consequence, CC2Dv2 is less possible to detect a wrong point far from the correct landmark. Furthermore, we present an open-source, landmark-labeled dataset for the measurement of biomechanical parameters of the lower extremity to alleviate the burden of orthopedic surgeons. The effectiveness of CC2Dv2 is evaluated on the public dataset from the ISBI 2015 Grand-Challenge of cephalometric radiographs and our new dataset, which greatly outperforms the state-of-the-art one-shot landmark detection approaches.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Rib Suppression in Digital Chest Tomosynthesis

Digital chest tomosynthesis (DCT) is a technique to produce sectional 3D images of a human chest for pulmonary disease screening, with 2D X-ray projections taken within an extremely limited range of angles. However, under the limited angle scenario, DCT contains strong artifacts caused by the presence of ribs, jamming the imaging quality of the lung area. Recently, great progress has been achieved for rib suppression in a single X-ray image, to reveal a clearer lung texture. We firstly extend the rib suppression problem to the 3D case at the software level. We propose a $\textbf{T}$omosynthesis $\textbf{RI}$b Su$\textbf{P}$pression and $\textbf{L}$ung $\textbf{E}$nhancement $\textbf{Net}$work (TRIPLE-Net) to model the 3D rib component and provide a rib-free DCT. TRIPLE-Net takes the advantages from both 2D and 3D domains, which model the ribs in DCT with the exact FBP procedure and 3D depth information, respectively. The experiments on simulated datasets and clinical data have shown the effectiveness of TRIPLE-Net to preserve lung details as well as improve the imaging quality of pulmonary diseases. Finally, an expert user study confirms our findings.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

You Only Learn Once: Universal Anatomical Landmark Detection

Detecting anatomical landmarks in medical images plays an essential role in understanding the anatomy and planning automated processing. In recent years, a variety of deep neural network methods have been developed to detect landmarks automatically. However, all of those methods are unary in the sense that a highly specialized network is trained for a single task say associated with a particular anatomical region. In this work, for the first time, we investigate the idea of "You Only Learn Once (YOLO)" and develop a universal anatomical landmark detection model to realize multiple landmark detection tasks with end-to-end training based on mixed datasets. The model consists of a local network and a global network: The local network is built upon the idea of universal U-Net to learn multi-domain local features and the global network is a parallelly-duplicated sequential of dilated convolutions that extract global features to further disambiguate the landmark locations. It is worth mentioning that the new model design requires much fewer parameters than models with standard convolutions to train. We evaluate our YOLO model on three X-ray datasets of 1,588 images on the head, hand, and chest, collectively contributing 62 landmarks. The experimental results show that our proposed universal model behaves largely better than any previous models trained on multiple datasets. It even beats the performance of the model that is trained separately for every single dataset. The code is available at https://github.com/MIRACLE-Center/YOLO_Universal_Anatomical_Landmark_Detection

0 citations0 reviewsNo code linkedOpen access
preprint2021arXiv

One-Shot Medical Landmark Detection

The success of deep learning methods relies on the availability of a large number of datasets with annotations; however, curating such datasets is burdensome, especially for medical images. To relieve such a burden for a landmark detection task, we explore the feasibility of using only a single annotated image and propose a novel framework named Cascade Comparing to Detect (CC2D) for one-shot landmark detection. CC2D consists of two stages: 1) Self-supervised learning (CC2D-SSL) and 2) Training with pseudo-labels (CC2D-TPL). CC2D-SSL captures the consistent anatomical information in a coarse-to-fine fashion by comparing the cascade feature representations and generates predictions on the training set. CC2D-TPL further improves the performance by training a new landmark detector with those predictions. The effectiveness of CC2D is evaluated on a widely-used public dataset of cephalometric landmark detection, which achieves a competitive detection accuracy of 81.01\% within 4.0mm, comparable to the state-of-the-art fully-supervised methods using a lot more than one training image.

0 citations0 reviewsNo code linkedOpen access
preprint2020arXiv

Miss the Point: Targeted Adversarial Attack on Multiple Landmark Detection

Recent methods in multiple landmark detection based on deep convolutional neural networks (CNNs) reach high accuracy and improve traditional clinical workflow. However, the vulnerability of CNNs to adversarial-example attacks can be easily exploited to break classification and segmentation tasks. This paper is the first to study how fragile a CNN-based model on multiple landmark detection to adversarial perturbations. Specifically, we propose a novel Adaptive Targeted Iterative FGSM (ATI-FGSM) attack against the state-of-the-art models in multiple landmark detection. The attacker can use ATI-FGSM to precisely control the model predictions of arbitrarily selected landmarks, while keeping other stationary landmarks still, by adding imperceptible perturbations to the original image. A comprehensive evaluation on a public dataset for cephalometric landmark detection demonstrates that the adversarial examples generated by ATI-FGSM break the CNN-based network more effectively and efficiently, compared with the original Iterative FGSM attack. Our work reveals serious threats to patients' health. Furthermore, we discuss the limitations of our method and provide potential defense directions, by investigating the coupling effect of nearby landmarks, i.e., a major source of divergence in our experiments. Our source code is available at https://github.com/qsyao/attack_landmark_detection.

0 citations0 reviewsNo code linkedOpen access