Modeling polypharmacy side effects with graph convolutional networks

2 February 2018

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

47 / 97 papers shown

Title
Scientific Language Models for Biomedical Knowledge Base Completion: An Empirical Study Rahul Nadkarni David Wadden Iz Beltagy Noah A. Smith Hannaneh Hajishirzi Tom Hope 35 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 16 115 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 51 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
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 27 156 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 O. 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 33 263 0 18 Feb 2021
Graph Neural Networks: Taxonomy, Advances and Trends Yu Zhou Haixia Zheng Xin Huang Shufeng Hao Dengao Li Jumin Zhao AI4TS 25 116 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 27 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 21 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 18 11 0 25 Oct 2020
PGM-Explainer: Probabilistic Graphical Model Explanations for Graph Neural Networks Minh Nhat Vu My T. Thai BDL 16 328 0 12 Oct 2020
Hierarchical Message-Passing Graph Neural Networks Zhiqiang Zhong Cheng-Te Li Jun Pang 30 46 0 08 Sep 2020
Hierarchical Protein Function Prediction with Tail-GNNs Stefan Spalević Petar Velivcković Jovana Kovavcević Mladen Nikolic AI4CE 15 5 0 24 Jul 2020
Temporal Graph Networks for Deep Learning on Dynamic Graphs Emanuele Rossi B. Chamberlain Fabrizio Frasca D. Eynard Federico Monti M. Bronstein AI4CE 40 629 0 18 Jun 2020
Subgraph Neural Networks Emily Alsentzer S. G. Finlayson Michelle M. Li Marinka Zitnik GNN 23 134 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 27 287 0 15 Jun 2020
Graph Meta Learning via Local Subgraphs Kexin Huang Marinka Zitnik 42 161 0 14 Jun 2020
A Tailored Convolutional Neural Network for Nonlinear Manifold Learning of Computational Physics Data using Unstructured Spatial Discretizations John Tencer Kevin Potter AI4CE 18 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 34 215 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 30 2,652 0 02 May 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 48 277 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 11 3 0 07 Nov 2019
Hyperbolic Graph Neural Networks Qi Liu Maximilian Nickel Douwe Kiela AI4CE GNN 33 370 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 15 325 0 12 Jun 2019
Drug-Drug Adverse Effect Prediction with Graph Co-Attention Andreea Deac Yu-Hsiang Huang Petar Velickovic Pietro Lió Jian Tang 20 77 0 02 May 2019
MedGCN: Medication recommendation and lab test imputation via graph convolutional networks Chengsheng Mao Liang Yao Yuan Luo GNN 24 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 39 56 0 31 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 21 295 0 28 Feb 2019
Dynamic Graph Representation Learning via Self-Attention Networks Aravind Sankar Yanhong Wu Liang Gou Wei Zhang Hao Yang GNN 14 119 0 22 Dec 2018
Graph Neural Networks: A Review of Methods and Applications Jie Zhou Ganqu Cui Shengding Hu Zhengyan Zhang Cheng Yang Zhiyuan Liu Lifeng Wang Changcheng Li Maosong Sun AI4CE GNN 28 5,400 0 20 Dec 2018
Deep Learning on Graphs: A Survey Ziwei Zhang Peng Cui Wenwu Zhu GNN 42 1,321 0 11 Dec 2018
Graph Neural Networks for IceCube Signal Classification Nicholas Choma Federico Monti Lisa Gerhardt T. Palczewski Z. Ronaghi P. Prabhat W. Bhimji M. Bronstein S. Klein Joan Bruna 16 76 0 17 Sep 2018
GAMENet: Graph Augmented MEmory Networks for Recommending Medication Combination Junyuan Shang Cao Xiao Tengfei Ma Hongyan Li Jimeng Sun GNN 22 254 0 06 Sep 2018
SimGNN: A Neural Network Approach to Fast Graph Similarity Computation Yunsheng Bai Haoyang Ding Song Bian Ting-Li Chen Yizhou Sun Wei Wang GNN 21 313 0 16 Aug 2018
Graph Convolutional Neural Networks for Web-Scale Recommender Systems Rex Ying Ruining He Kaifeng Chen Pong Eksombatchai William L. Hamilton J. Leskovec GNN BDL 102 3,481 0 06 Jun 2018
Embedding Logical Queries on Knowledge Graphs William L. Hamilton Payal Bajaj Marinka Zitnik Dan Jurafsky J. Leskovec NAI 33 286 0 05 Jun 2018