相关论文: Recovering Metabolic Networks using A Novel Hyperl…

In many personalized recommendation scenarios, the generalization ability of a target task can be improved via learning with additional auxiliary tasks alongside this target task on a multi-task network. However, this method often suffers…

Mathematical modeling in systems toxicology enables a comprehensive understanding of the effects of pharmaceutical substances on cardiac health. However, the complexity of these models limits their widespread application in early drug…

Chemical kinetic models are an essential component in the development and optimisation of combustion devices through their coupling to multi-dimensional simulations such as computational fluid dynamics (CFD). Low-dimensional kinetic models…

Accurately identifying metabolites i.e. small molecules from mass spectrometry data remains a core challenge in metabolomics, with broad applications in drug discovery, environmental analysis, and clinical research. We address the Molecule…

As a fundamental challenge in vast disciplines, link prediction aims to identify potential links in a network based on the incomplete observed information, which has broad applications ranging from uncovering missing protein-protein…

Link prediction infers potential links from observed networks, and is one of the essential problems in network analyses. In contrast to traditional graph representation modeling which only predicts two-way pairwise relations, we propose a…

This paper focuses on using natural language descriptions to enhance predictive models in the chemistry field. Conventionally, chemoinformatics models are trained with extensive structured data manually extracted from the literature. In…

Identifying enzymes that catalyze target biochemical reactions is a key step in computational enzyme discovery and biocatalyst design. Recent representation-learning methods formulate this problem as enzyme--reaction matching, where paired…

Heterogeneous networks are widely used to model real-world semi-structured data. The key challenge of learning over such networks is the modeling of node similarity under both network structures and contents. To deal with network…

Keyphrase extraction is a fundamental task in natural language processing and information retrieval that aims to extract a set of phrases with important information from a source document. Identifying important keyphrase is the central…

Recon 2 is a highly curated reconstruction of the human metabolic network. Whilst the network is state of the art, it has shortcomings, including the presence of unbalanced reactions involving generic metabolites. By replacing these generic…

The widening gap between known proteins and their functions has encouraged the development of methods to automatically infer annotations. Automatic functional annotation of proteins is expected to meet the conflicting requirements of…

Uplift modeling is an area of machine learning which aims at predicting the causal effect of some action on a given individual. The action may be a medical procedure, marketing campaign, or any other circumstance controlled by the…

The cost efficiency of model inference is critical to real-world machine learning (ML) applications, especially for delay-sensitive tasks and resource-limited devices. A typical dilemma is: in order to provide complex intelligent services…

We propose an autoregressive entity linking model, that is trained with two auxiliary tasks, and learns to re-rank generated samples at inference time. Our proposed novelties address two weaknesses in the literature. First, a recent method…

Boosting is a method for finding a highly accurate hypothesis by linearly combining many ``weak" hypotheses, each of which may be only moderately accurate. Thus, boosting is a method for learning an ensemble of classifiers. While boosting…

Enzymes, with their specific catalyzed reactions, are necessary for all aspects of life, enabling diverse biological processes and adaptations. Predicting enzyme functions is essential for understanding biological pathways, guiding drug…

The ability to reason beyond established knowledge allows Organic Chemists to solve synthetic problems and to invent novel transformations. Here, we propose a model which mimics chemical reasoning and formalises reaction prediction as…

Within the realm of advanced code retrieval, existing methods have primarily relied on intricate matching and attention-based mechanisms. However, these methods often lead to computational and memory inefficiencies, posing a significant…

Link prediction plays an important role in network analysis and applications. Recently, approaches for link prediction have evolved from traditional similarity-based algorithms into embedding-based algorithms. However, most existing…