AIMC Topic: Neural Networks, Computer

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Interpretable-ADMET: a web service for ADMET prediction and optimization based on deep neural representation.

Bioinformatics (Oxford, England)
MOTIVATION: In the process of discovery and optimization of lead compounds, it is difficult for non-expert pharmacologists to intuitively determine the contribution of substructure to a particular property of a molecule.

3DGT-DDI: 3D graph and text based neural network for drug-drug interaction prediction.

Briefings in bioinformatics
MOTIVATION: Drug-drug interactions (DDIs) occur during the combination of drugs. Identifying potential DDI helps us to study the mechanism behind the combination medication or adverse reactions so as to avoid the side effects. Although many artificia...

GraphTGI: an attention-based graph embedding model for predicting TF-target gene interactions.

Briefings in bioinformatics
MOTIVATION: Interaction between transcription factor (TF) and its target genes establishes the knowledge foundation for biological researches in transcriptional regulation, the number of which is, however, still limited by biological techniques. Exis...

Integrating specific and common topologies of heterogeneous graphs and pairwise attributes for drug-related side effect prediction.

Briefings in bioinformatics
MOTIVATION: Computerized methods for drug-related side effect identification can help reduce costs and speed up drug development. Multisource data about drug and side effects are widely used to predict potential drug-related side effects. Heterogeneo...

Attention-based Knowledge Graph Representation Learning for Predicting Drug-drug Interactions.

Briefings in bioinformatics
Drug-drug interactions (DDIs) are known as the main cause of life-threatening adverse events, and their identification is a key task in drug development. Existing computational algorithms mainly solve this problem by using advanced representation lea...

An analysis of protein language model embeddings for fold prediction.

Briefings in bioinformatics
The identification of the protein fold class is a challenging problem in structural biology. Recent computational methods for fold prediction leverage deep learning techniques to extract protein fold-representative embeddings mainly using evolutionar...

Heterogeneous multi-scale neighbor topologies enhanced drug-disease association prediction.

Briefings in bioinformatics
MOTIVATION: Identifying new uses of approved drugs is an effective way to reduce the time and cost of drug development. Recent computational approaches for predicting drug-disease associations have integrated multi-sourced data on drugs and diseases....

DTI-HETA: prediction of drug-target interactions based on GCN and GAT on heterogeneous graph.

Briefings in bioinformatics
Drug-target interaction (DTI) prediction plays an important role in drug repositioning, drug discovery and drug design. However, due to the large size of the chemical and genomic spaces and the complex interactions between drugs and targets, experime...

An efficient curriculum learning-based strategy for molecular graph learning.

Briefings in bioinformatics
Computational methods have been widely applied to resolve various core issues in drug discovery, such as molecular property prediction. In recent years, a data-driven computational method-deep learning had achieved a number of impressive successes in...

RNAI-FRID: novel feature representation method with information enhancement and dimension reduction for RNA-RNA interaction.

Briefings in bioinformatics
Different ribonucleic acids (RNAs) can interact to form regulatory networks that play important role in many life activities. Molecular biology experiments can confirm RNA-RNA interactions to facilitate the exploration of their biological functions, ...