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AGMI: Attention-Guided Multi-omics Integration for Drug Response Prediction with Graph Neural Networks

2021-12-15 07:42:46
Feng Ruiwei, Xie Yufeng, Lai Minshan, Chen Danny, Cao Ji, Wu Jian

Abstract

Accurate drug response prediction (DRP) is a crucial yet challenging task in precision medicine. This paper presents a novel Attention-Guided Multi-omics Integration (AGMI) approach for DRP, which first constructs a Multi-edge Graph (MeG) for each cell line, and then aggregates multi-omics features to predict drug response using a novel structure, called Graph edge-aware Network (GeNet). For the first time, our AGMI approach explores gene constraint based multi-omics integration for DRP with the whole-genome using GNNs. Empirical experiments on the CCLE and GDSC datasets show that our AGMI largely outperforms state-of-the-art DRP methods by 8.3%--34.2% on four metrics. Our data and code are available at this https URL.

Abstract (translated)

URL

https://arxiv.org/abs/2112.08366

PDF

https://arxiv.org/pdf/2112.08366.pdf


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