11 accepted papers
Protein sequence generation for engineering requires samples that are biophysically plausible and, when targeting a family/domain, remain recognizable members while exploring within-family diversity. Current discrete generative models typically start from uniform or masked-token noise, which discard…
Multi-objective protein design is essential for meeting the complex demands of synthetic biology. To adapt to shifting multi-functional targets without the prohibitive cost of retraining, test-time scaling has emerged as a flexible, training-free alternative. However, current test-time diffusion met…
Generating protein sequences that reliably fold into target structures is a central challenge in computational biology and protein design. Progress in protein inverse folding (PIF), however, is fundamentally constrained by the scarcity of high-quality structural data, which limits the effectiveness
Graph fraud detection (GFD) has rapidly advanced in protecting online services by identifying malicious fraudsters. Recent supervised GFD research highlights that heterophilic connections between fraudster and user greatly impacts detection performance, where the fraudsters tend to camouflage themse…
Accurate molecular property prediction is a critical challenge with wide-ranging applications in chemistry, materials science, and drug discovery. Molecular representation methods, including fingerprints and graph neural networks (GNNs), achieve state-of-the-art results by effectively deriving featu
Molecular Relational Learning (MRL) aims to understand interactions between molecular pairs, playing a critical role in advancing biochemical research. With the recent development of large language models (LLMs), a growing number of studies have explored the integration of MRL with LLMs and achieved…
Unsupervised graph representation learning (UGRL) has drawn increasing research attention and achieved promising results in several graph analytic tasks. Relying on the homophily assumption, existing UGRL methods tend to smooth the learned node representations along all edges, ignoring the existence…
Real-world graphs generally have only one kind of tendency in their connections. These connections are either homophilic-prone or heterophily-prone. While graphs with homophily-prone edges tend to connect nodes with the same class (i.e., intra-class nodes), heterophily-prone edges tend to build rela…
Graph similarity learning refers to calculating the similarity score between two graphs, which is required in many realistic applications, such as visual tracking, graph classification, and collaborative filtering. As most of the existing graph neural networks yield effective graph representations o…
Graph contrastive learning (GCL) alleviates the heavy reliance on label information for graph representation learning (GRL) via self-supervised learning schemes. The core idea is to learn by maximising mutual information for similar instances, which requires similarity computation between two node i…
Graph representation learning plays a vital role in processing graph-structured data. However, prior arts on graph representation learning heavily rely on labeling information. To overcome this problem, inspired by the recent success of graph contrastive learning and Siamese networks in visual repre…