Related papers: Evaluating protein binding interfaces with PUMBA

Transformer and its derivatives have achieved success in diverse tasks across computer vision, natural language processing, and speech processing. To reduce the complexity of computations within the multi-head self-attention mechanism in…

Panoptic segmentation requires the simultaneous recognition of countable thing instances and amorphous stuff regions, placing joint demands on long-range context modelling, multi-scale feature representation, and efficient dense prediction.…

Multi-modal fusion holds great promise for integrating information from different modalities. However, due to a lack of consideration for modal consistency, existing multi-modal fusion methods in the field of remote sensing still face…

Transformer-based methods for 3D human pose estimation face significant computational challenges due to the quadratic growth of self-attention mechanism complexity with sequence length. Recently, the Mamba model has substantially reduced…

Proteins play a vital role in biological processes and are indispensable for living organisms. Accurate representation of proteins is crucial, especially in drug development. Recently, there has been a notable increase in interest in…

Molecular docking is a crucial step in drug development, which enables the virtual screening of compound libraries to identify potential ligands that target proteins of interest. However, the computational complexity of traditional docking…

Remote sensing change detection (CD) has made significant advancements with the adoption of Convolutional Neural Networks (CNNs) and Transformers. While CNNs offer powerful feature extraction, they are constrained by receptive field…

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We present a simple, modular graph-based convolutional neural network that takes structural information from protein-ligand complexes as input to generate models for activity and binding mode prediction. Complex structures are generated by…

Mitosis detection in histopathology images plays a key role in tumor assessment. Although machine learning algorithms could be exploited for aiding physicians in accurately performing such a task, these algorithms suffer from significative…

Protein (receptor)--ligand interaction prediction is a critical component in computer-aided drug design, significantly influencing molecular docking and virtual screening processes. Despite the development of numerous scoring functions in…

Deep Learning and big data have shown tremendous success in bioinformatics and computational biology in recent years; artificial intelligence methods have also significantly contributed in the task of protein function classification. This…

Accurately determining a change in protein binding affinity upon mutations is important for the discovery and design of novel therapeutics and to assist mutagenesis studies. Determination of change in binding affinity upon mutations…

Protein-protein interactions (PPIs) are essentials for many biological processes where two or more proteins physically bind together to achieve their functions. Modeling PPIs is useful for many biomedical applications, such as vaccine…

Source-free domain adaptation (SFDA) tackles the critical challenge of adapting source-pretrained models to unlabeled target domains without access to source data, overcoming data privacy and storage limitations in real-world applications.…

Real-world deployment of Vision-Language Models (VLMs) is hindered by high computational demands, as existing architectures inefficiently process all tokens uniformly. We introduce Adaptive Token Pruning (ATP), a dynamic inference mechanism…

Transformer-based architectures have become the backbone of both uni-modal and multi-modal foundation models, largely due to their scalability via attention mechanisms, resulting in a rich ecosystem of publicly available pre-trained models…

Pan-sharpening involves integrating information from low-resolution multi-spectral and high-resolution panchromatic images to generate high-resolution multi-spectral counterparts. While recent advancements in the state space model,…

Mamba has recently gained widespread attention as a backbone model for point cloud modeling, leveraging a state-space architecture that enables efficient global sequence modeling with linear complexity. However, its lack of local inductive…

Snapshot Compressive Imaging (SCI) enables fast spectral imaging but requires effective decoding algorithms for hyperspectral image (HSI) reconstruction from compressed measurements. Current CNN-based methods are limited in modeling…