Modeling polypharmacy side effects with graph convolutional networks

2 February 2018

Papers citing "Modeling polypharmacy side effects with graph convolutional networks"

50 / 108 papers shown

Title
Relational graph convolutional networks for predicting blood-brain barrier penetration of drug molecules Yan Ding Xiaoqian Jiang Yejin Kim GNN 27 19 0 04 Jul 2021
DGL-LifeSci: An Open-Source Toolkit for Deep Learning on Graphs in Life Science Mufei Li Jinjing Zhou Jiajing Hu Wenxuan Fan Yangkang Zhang Yaxin Gu George Karypis GNN AI4CE 33 160 0 27 Jun 2021
Scientific Language Models for Biomedical Knowledge Base Completion: An Empirical Study Rahul Nadkarni David Wadden Iz Beltagy Noah A. Smith Hannaneh Hajishirzi Tom Hope 40 27 0 17 Jun 2021
Probing GNN Explainers: A Rigorous Theoretical and Empirical Analysis of GNN Explanation Methods Chirag Agarwal Marinka Zitnik Himabindu Lakkaraju 27 51 0 16 Jun 2021
MoCL: Data-driven Molecular Fingerprint via Knowledge-aware Contrastive Learning from Molecular Graph Mengying Sun Jing Xing Huijun Wang Bin Chen Jiayu Zhou 24 115 0 05 Jun 2021
TCL: Transformer-based Dynamic Graph Modelling via Contrastive Learning Lu Wang Xiaofu Chang Shuang Li Yunfei Chu Hui Li Wei Zhang Xiaofeng He Le Song Jingren Zhou Hongxia Yang 24 52 0 17 May 2021
DistGNN: Scalable Distributed Training for Large-Scale Graph Neural Networks Vasimuddin Sanchit Misra Guixiang Ma Ramanarayan Mohanty E. Georganas A. Heinecke Dhiraj D. Kalamkar Nesreen Ahmed Sasikanth Avancha GNN 33 119 0 14 Apr 2021
Generative Causal Explanations for Graph Neural Networks Wanyu Lin Hao Lan Baochun Li CML 36 173 0 14 Apr 2021
Foundations of Population-Based SHM, Part IV: The Geometry of Spaces of Structures and their Feature Spaces G. Tsialiamanis Charilaos Mylonas Eleni Chatzi N. Dervilis D. Wagg Keith Worden 28 40 0 05 Mar 2021
Towards a Unified Framework for Fair and Stable Graph Representation Learning Chirag Agarwal Himabindu Lakkaraju Marinka Zitnik 27 157 0 25 Feb 2021
A Review of Biomedical Datasets Relating to Drug Discovery: A Knowledge Graph Perspective Stephen Bonner Ian P Barrett Cheng Ye Rowan Swiers Ola Engkvist A. Bender Charles Tapley Hoyt William L. Hamilton 32 94 0 19 Feb 2021
Therapeutics Data Commons: Machine Learning Datasets and Tasks for Drug Discovery and Development Kexin Huang Tianfan Fu Wenhao Gao Yue Zhao Yusuf Roohani J. Leskovec Connor W. Coley Cao Xiao Jimeng Sun Marinka Zitnik OOD LM&MA 43 264 0 18 Feb 2021
Graph Neural Networks: Taxonomy, Advances and Trends Yu Zhou Haixia Zheng Xin Huang Shufeng Hao Dengao Li Jumin Zhao AI4TS 27 117 0 16 Dec 2020
Utilising Graph Machine Learning within Drug Discovery and Development Thomas Gaudelet Ben Day Arian R. Jamasb Jyothish Soman Cristian Regep ... Jian Tang D. Roblin Tom L. Blundell M. Bronstein J. Taylor-King AI4CE 29 36 0 09 Dec 2020
GripNet: Graph Information Propagation on Supergraph for Heterogeneous Graphs Hao Xu Shengqi Sang Peizhen Bai Laurence Yang Haiping Lu GNN 24 15 0 29 Oct 2020
GraphMDN: Leveraging graph structure and deep learning to solve inverse problems Tuomas P. Oikarinen Daniel C. Hannah Sohrob Kazerounian BDL GNN 25 29 0 26 Oct 2020
Exploiting Heterogeneous Graph Neural Networks with Latent Worker/Task Correlation Information for Label Aggregation in Crowdsourcing Hanlu Wu Tengfei Ma Lingfei Wu S. Ji FedML 21 11 0 25 Oct 2020
PGM-Explainer: Probabilistic Graphical Model Explanations for Graph Neural Networks Minh Nhat Vu My T. Thai BDL 18 328 0 12 Oct 2020
SumGNN: Multi-typed Drug Interaction Prediction via Efficient Knowledge Graph Summarization Yue Yu Kexin Huang Chao Zhang Lucas Glass Jimeng Sun Cao Xiao 28 120 0 04 Oct 2020
Hierarchical Message-Passing Graph Neural Networks Zhiqiang Zhong Cheng-Te Li Jun Pang 30 47 0 08 Sep 2020
Towards Structured Prediction in Bioinformatics with Deep Learning Yu Li AI4CE 16 1 0 25 Aug 2020
Hierarchical Protein Function Prediction with Tail-GNNs Stefan Spalević Petar Velivcković Jovana Kovavcević Mladen Nikolic AI4CE 15 5 0 24 Jul 2020
Graph Convolutional Networks for Graphs Containing Missing Features Hibiki Taguchi Xin Liu T. Murata GNN 33 85 0 09 Jul 2020
Temporal Graph Networks for Deep Learning on Dynamic Graphs Emanuele Rossi B. Chamberlain Fabrizio Frasca D. Eynard Federico Monti M. Bronstein AI4CE 40 632 0 18 Jun 2020
Subgraph Neural Networks Emily Alsentzer S. G. Finlayson Michelle M. Li Marinka Zitnik GNN 29 134 0 18 Jun 2020
Deep Learning Meets SAR Xiaoxiang Zhu S. Montazeri Mohsin Ali Yuansheng Hua Yuanyuan Wang Lichao Mou Yilei Shi Feng Xu R. Bamler 36 219 0 17 Jun 2020
GNNGuard: Defending Graph Neural Networks against Adversarial Attacks Xiang Zhang Marinka Zitnik AAML 27 291 0 15 Jun 2020
Graph Meta Learning via Local Subgraphs Kexin Huang Marinka Zitnik 42 161 0 14 Jun 2020
Learning to Extrapolate Knowledge: Transductive Few-shot Out-of-Graph Link Prediction Jinheon Baek Dong Bok Lee Sung Ju Hwang 19 87 0 11 Jun 2020
A Tailored Convolutional Neural Network for Nonlinear Manifold Learning of Computational Physics Data using Unstructured Spatial Discretizations John Tencer Kevin Potter AI4CE 23 13 0 11 Jun 2020
Higher-Order Explanations of Graph Neural Networks via Relevant Walks Thomas Schnake Oliver Eberle Jonas Lederer Shinichi Nakajima Kristof T. Schütt Klaus-Robert Muller G. Montavon 34 217 0 05 Jun 2020
Interpretable and Efficient Heterogeneous Graph Convolutional Network Yaming Yang Ziyu Guan Jianxin Li Wei Zhao Jiangtao Cui Quan Wang GNN 24 171 0 27 May 2020
GoGNN: Graph of Graphs Neural Network for Predicting Structured Entity Interactions Hanchen Wang Defu Lian Ying Zhang Lu Qin Xuemin Lin GNN 29 81 0 12 May 2020
Open Graph Benchmark: Datasets for Machine Learning on Graphs Weihua Hu Matthias Fey Marinka Zitnik Yuxiao Dong Hongyu Ren Bowen Liu Michele Catasta J. Leskovec 61 2,663 0 02 May 2020
SIGN: Scalable Inception Graph Neural Networks Fabrizio Frasca Emanuele Rossi D. Eynard B. Chamberlain M. Bronstein Federico Monti GNN 30 393 0 23 Apr 2020
DeepGS: Deep Representation Learning of Graphs and Sequences for Drug-Target Binding Affinity Prediction Xuan Lin 41 55 0 31 Mar 2020
A Gentle Introduction to Deep Learning for Graphs D. Bacciu Federico Errica Alessio Micheli Marco Podda AI4CE GNN 51 278 0 29 Dec 2019
CASTER: Predicting Drug Interactions with Chemical Substructure Representation Kexin Huang Cao Xiao T. Hoang Lucas Glass Jimeng Sun 30 124 0 15 Nov 2019
Graph Convolutional Networks Meet with High Dimensionality Reduction Mustafa Coşkun GNN BDL 13 3 0 07 Nov 2019
Hyperbolic Graph Neural Networks Qi Liu Maximilian Nickel Douwe Kiela AI4CE GNN 45 372 0 28 Oct 2019
GENN: Predicting Correlated Drug-drug Interactions with Graph Energy Neural Networks Tengfei Ma Junyuan Shang Cao Xiao Jimeng Sun GNN 19 13 0 04 Oct 2019
Molecular activity prediction using graph convolutional deep neural network considering distance on a molecular graph Masahito Ohue Ryota Keisuke Yanagisawa Y. Akiyama GNN 22 4 0 02 Jul 2019
Graph Embedding on Biomedical Networks: Methods, Applications, and Evaluations Xiang Yue Zhen Wang Jingong Huang Srinivasan Parthasarathy Soheil Moosavinasab Yungui Huang S. Lin Wen Zhang Ping Zhang Huan Sun GNN 21 325 0 12 Jun 2019
Explainability Techniques for Graph Convolutional Networks Federico Baldassarre Hossein Azizpour GNN FAtt 33 264 0 31 May 2019
Drug-Drug Adverse Effect Prediction with Graph Co-Attention Andreea Deac Yu-Hsiang Huang Petar Velickovic Pietro Lio Jian Tang 22 77 0 02 May 2019
MedGCN: Medication recommendation and lab test imputation via graph convolutional networks Chengsheng Mao Liang Yao Yuan Luo GNN 29 48 0 31 Mar 2019
ImageGCN: Multi-Relational Image Graph Convolutional Networks for Disease Identification with Chest X-rays Chengsheng Mao Liang Yao Yuan Luo MedIm GNN 42 56 0 31 Mar 2019
GNNExplainer: Generating Explanations for Graph Neural Networks Rex Ying Dylan Bourgeois Jiaxuan You Marinka Zitnik J. Leskovec LLMAG 37 1,291 0 10 Mar 2019
Deep learning in bioinformatics: introduction, application, and perspective in big data era Yu Li Chao Huang Lizhong Ding Zhongxiao Li Yijie Pan Xin Gao AI4CE 29 295 0 28 Feb 2019
Dynamic Graph Representation Learning via Self-Attention Networks Aravind Sankar Yanhong Wu Liang Gou Wei Zhang Hao Yang GNN 22 119 0 22 Dec 2018