Context-sensitive graph representation learning

Graph Convolutional Network (GCN) is a powerful emerging deep learning technique for learning graph data. However, there are still some challenges for GCN. For example, the model is shallow; the performance is poor when labelled nodes are severely scarce. In this paper, we propose a Multi-Semantic Aligned Graph Convolutional Network (MSAGCN), which contains two fundamental operations: multi-angle aggregation and semantic alignment, to resolve two challenges simultaneously. The core of MSAGCN is the aggregation of nodes that belong to the same class from three perspectives: nodes, features, and graph structure, and expects the obtained node features to be mapped nearby. Specifically, multi-angle aggregation is applied to extract features from three angles of the labelled nodes, and semantic alignment is utilised to align the semantics in the extracted features to enhance the similar content from different angles. In this way, the problem of over-smoothing and over-fitting for GCN can be alleviated. We perform the node clustering task on three citation datasets, and the experimental results demonstrate that our method outperforms the state-of-the-art (SOTA) baselines

Graph Representation Learning in Biomedicine

Biomedical networks are universal descriptors of systems of interacting elements, from protein interactions to disease networks, all the way to healthcare systems and scientific knowledge. With the remarkable success of representation learning in providing powerful predictions and insights, we have witnessed a rapid expansion of representation learning techniques into modeling, analyzing, and learning with such networks. In this review, we put forward an observation that long-standing principles of networks in biology and medicine -- while often unspoken in machine learning research -- can provide the conceptual grounding for representation learning, explain its current successes and limitations, and inform future advances. We synthesize a spectrum of algorithmic approaches that, at their core, leverage graph topology to embed networks into compact vector spaces, and capture the breadth of ways in which representation learning is proving useful. Areas of profound impact include identifying variants underlying complex traits, disentangling behaviors of single cells and their effects on health, assisting in diagnosis and treatment of patients, and developing safe and effective medicines