Chenglong Li

Weizhe Kong, Xiao Wang, Ruichong Gao et al.

Pedestrian Attribute Recognition (PAR) is an indispensable task in human-centered research and has made great progress in recent years with the development of deep neural networks. However, the potential vulnerability and anti-interference ability have still not been fully explored. To bridge this gap, this paper proposes the first adversarial attack and defense framework for pedestrian attribute recognition. Specifically, we exploit both global- and patch-level attacks on the pedestrian images, based on the pre-trained CLIP-based PAR framework. It first divides the input pedestrian image into non-overlapping patches and embeds them into feature embeddings using a projection layer. Meanwhile, the attribute set is expanded into sentences using prompts and embedded into attribute features using a pre-trained CLIP text encoder. A multi-modal Transformer is adopted to fuse the obtained vision and text tokens, and a feed-forward network is utilized for attribute recognition. Based on the aforementioned PAR framework, we adopt the adversarial semantic and label-perturbation to generate the adversarial noise, termed ASL-PAR. We also design a semantic offset defense strategy to suppress the influence of adversarial attacks. Extensive experiments conducted on both digital domains (i.e., PETA, PA100K, MSP60K, RAPv2) and physical domains fully validated the effectiveness of our proposed adversarial attack and defense strategies for the pedestrian attribute recognition. The source code of this paper will be released on https://github.com/Event-AHU/OpenPAR.

Qiaosi Tang, Ranjala Ratnayake, Gustavo Seabra et al.

Morphological profiling is a valuable tool in phenotypic drug discovery. The advent of high-throughput automated imaging has enabled the capturing of a wide range of morphological features of cells or organisms in response to perturbations at the single-cell resolution. Concurrently, significant advances in machine learning and deep learning, especially in computer vision, have led to substantial improvements in analyzing large-scale high-content images at high-throughput. These efforts have facilitated understanding of compound mechanism-of-action (MOA), drug repurposing, characterization of cell morphodynamics under perturbation, and ultimately contributing to the development of novel therapeutics. In this review, we provide a comprehensive overview of the recent advances in the field of morphological profiling. We summarize the image profiling analysis workflow, survey a broad spectrum of analysis strategies encompassing feature engineering- and deep learning-based approaches, and introduce publicly available benchmark datasets. We place a particular emphasis on the application of deep learning in this pipeline, covering cell segmentation, image representation learning, and multimodal learning. Additionally, we illuminate the application of morphological profiling in phenotypic drug discovery and highlight potential challenges and opportunities in this field.

Yanjun Li, Mohammad A. Rezaei, Chenglong Li et al.

The cornerstone of computational drug design is the calculation of binding affinity between two biological counterparts, especially a chemical compound, i.e., a ligand, and a protein. Predicting the strength of protein-ligand binding with reasonable accuracy is critical for drug discovery. In this paper, we propose a data-driven framework named DeepAtom to accurately predict the protein-ligand binding affinity. With 3D Convolutional Neural Network (3D-CNN) architecture, DeepAtom could automatically extract binding related atomic interaction patterns from the voxelized complex structure. Compared with the other CNN based approaches, our light-weight model design effectively improves the model representational capacity, even with the limited available training data. With validation experiments on the PDBbind v.2016 benchmark and the independent Astex Diverse Set, we demonstrate that the less feature engineering dependent DeepAtom approach consistently outperforms the other state-of-the-art scoring methods. We also compile and propose a new benchmark dataset to further improve the model performances. With the new dataset as training input, DeepAtom achieves Pearson's R=0.83 and RMSE=1.23 pK units on the PDBbind v.2016 core set. The promising results demonstrate that DeepAtom models can be potentially adopted in computational drug development protocols such as molecular docking and virtual screening.