{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/protein-interface-prediction-using-graph","title":"Protein Interface Prediction using Graph Convolutional Networks","arxiv_id":null,"date":"2017-12-01","proceeding":"NeurIPS 2017 12","authors":["Alex Fout","Jonathon Byrd","Basir Shariat","Asa Ben-Hur"],"abstract":"We consider the prediction of interfaces between proteins, a challenging problem with important applications in drug discovery and design, and examine the performance of existing and newly proposed spatial graph convolution operators for this task. By performing convolution over a local neighborhood of a node of interest, we are able to stack multiple layers of convolution and learn effective latent representations that integrate information across the graph that represent the three dimensional structure of a protein of interest. An architecture that combines the learned features across pairs of proteins is then used to classify pairs of amino acid residues as part of an interface or not. In our experiments, several graph convolution operators yielded accuracy that is better than the state-of-the-art SVM method in this task.","url_abs":"http://papers.nips.cc/paper/7231-protein-interface-prediction-using-graph-convolutional-networks","url_pdf":"http://papers.nips.cc/paper/7231-protein-interface-prediction-using-graph-convolutional-networks.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"protein-interface-prediction-using-graph","repo_url":"https://github.com/fouticus/pipgcn","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"tf","reach":null},{"paper_slug":"protein-interface-prediction-using-graph","repo_url":"https://github.com/YeongHyeon/PIPGCN-TF2","is_official":0,"mentioned_in_paper":0,"mentioned_in_github":0,"framework":"tf","reach":null}],"tasks":[{"task_slug":"drug-discovery","task_name":"Drug Discovery"},{"task_slug":"prediction","task_name":"Prediction"},{"task_slug":"protein-interface-prediction","task_name":"Protein Interface Prediction"}],"methods":[{"method_slug":"convolution","method_name":"Convolution"},{"method_slug":"svm","method_name":"SVM"}],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}