Yuan Li

Yongwei Wang, Yuan Li, Zhiqi Shen et al.

Reliable skin cancer diagnosis models play an essential role in early screening and medical intervention. Prevailing computer-aided skin cancer classification systems employ deep learning approaches. However, recent studies reveal their extreme vulnerability to adversarial attacks -- often imperceptible perturbations to significantly reduce the performances of skin cancer diagnosis models. To mitigate these threats, this work presents a simple, effective, and resource-efficient defense framework by reverse engineering adversarial perturbations in skin cancer images. Specifically, a multiscale image pyramid is first established to better preserve discriminative structures in the medical imaging domain. To neutralize adversarial effects, skin images at different scales are then progressively diffused by injecting isotropic Gaussian noises to move the adversarial examples to the clean image manifold. Crucially, to further reverse adversarial noises and suppress redundant injected noises, a novel multiscale denoising mechanism is carefully designed that aggregates image information from neighboring scales. We evaluated the defensive effectiveness of our method on ISIC 2019, a largest skin cancer multiclass classification dataset. Experimental results demonstrate that the proposed method can successfully reverse adversarial perturbations from different attacks and significantly outperform some state-of-the-art methods in defending skin cancer diagnosis models.

Yuchen Li, Chaoran Feng, Zhenyu Tang et al.

We introduce GS2E (Gaussian Splatting to Event), a large-scale synthetic event dataset for high-fidelity event vision tasks, captured from real-world sparse multi-view RGB images. Existing event datasets are often synthesized from dense RGB videos, which typically lack viewpoint diversity and geometric consistency, or depend on expensive, difficult-to-scale hardware setups. GS2E overcomes these limitations by first reconstructing photorealistic static scenes using 3D Gaussian Splatting, and subsequently employing a novel, physically-informed event simulation pipeline. This pipeline generally integrates adaptive trajectory interpolation with physically-consistent event contrast threshold modeling. Such an approach yields temporally dense and geometrically consistent event streams under diverse motion and lighting conditions, while ensuring strong alignment with underlying scene structures. Experimental results on event-based 3D reconstruction demonstrate GS2E's superior generalization capabilities and its practical value as a benchmark for advancing event vision research.

Aparna Elangovan, Yuan Li, Douglas E. V. Pires et al.

Protein-protein interactions (PPIs) are critical to normal cellular function and are related to many disease pathways. However, only 4% of PPIs are annotated with PTMs in biological knowledge databases such as IntAct, mainly performed through manual curation, which is neither time nor cost-effective. We use the IntAct PPI database to create a distant supervised dataset annotated with interacting protein pairs, their corresponding PTM type, and associated abstracts from the PubMed database. We train an ensemble of BioBERT models - dubbed PPI-BioBERT-x10 to improve confidence calibration. We extend the use of ensemble average confidence approach with confidence variation to counteract the effects of class imbalance to extract high confidence predictions. The PPI-BioBERT-x10 model evaluated on the test set resulted in a modest F1-micro 41.3 (P =5 8.1, R = 32.1). However, by combining high confidence and low variation to identify high quality predictions, tuning the predictions for precision, we retained 19% of the test predictions with 100% precision. We evaluated PPI-BioBERT-x10 on 18 million PubMed abstracts and extracted 1.6 million (546507 unique PTM-PPI triplets) PTM-PPI predictions, and filter ~ 5700 (4584 unique) high confidence predictions. Of the 5700, human evaluation on a small randomly sampled subset shows that the precision drops to 33.7% despite confidence calibration and highlights the challenges of generalisability beyond the test set even with confidence calibration. We circumvent the problem by only including predictions associated with multiple papers, improving the precision to 58.8%. In this work, we highlight the benefits and challenges of deep learning-based text mining in practice, and the need for increased emphasis on confidence calibration to facilitate human curation efforts.

Li Yuan, Will Xiao, Giorgia Dellaferrera et al.

Artificial neural networks (ANNs) are considered the current best models of biological vision. ANNs are the best predictors of neural activity in the ventral stream; moreover, recent work has demonstrated that ANN models fitted to neuronal activity can guide the synthesis of images that drive pre-specified response patterns in small neuronal populations. Despite the success in predicting and steering firing activity, these results have not been connected with perceptual or behavioral changes. Here we propose an array of methods for creating minimal, targeted image perturbations that lead to changes in both neuronal activity and perception as reflected in behavior. We generated 'deceptive images' of human faces, monkey faces, and noise patterns so that they are perceived as a different, pre-specified target category, and measured both monkey neuronal responses and human behavior to these images. We found several effective methods for changing primate visual categorization that required much smaller image change compared to untargeted noise. Our work shares the same goal with adversarial attack, namely the manipulation of images with minimal, targeted noise that leads ANN models to misclassify the images. Our results represent a valuable step in quantifying and characterizing the differences in perturbation robustness of biological and artificial vision.