{"id":5139,"date":"2019-10-03T09:48:53","date_gmt":"2019-10-03T08:48:53","guid":{"rendered":"https:\/\/www.blopig.com\/blog\/?p=5139"},"modified":"2019-10-29T15:53:50","modified_gmt":"2019-10-29T15:53:50","slug":"neurips-2019-chemistry-biology-papers","status":"publish","type":"post","link":"https:\/\/www.blopig.com\/blog\/2019\/10\/neurips-2019-chemistry-biology-papers\/","title":{"rendered":"NeurIPS 2019: Chemistry\/Biology papers"},"content":{"rendered":"\n<p>NeurIPS is the largest machine learning conference (by number of participants), with over 8,000 in 2017. This year, the conference will be held in Vancouver, Canada from 8th-14th December.<\/p>\n\n\n\n<p>Recently, the <a href=\"https:\/\/nips.cc\/Conferences\/2019\/AcceptedPapersInitial\">list of accepted papers was announced<\/a>, with 1430 papers accepted. Here, I will highlight several of potential interest to the chem-\/bio-informatics communities. Given the large number of papers, these were selected either by &#8220;accident&#8221; (i.e. I stumbled across them in one way or another) or through a basic search (e.g. Ctrl+f &#8220;molecule&#8221;).<\/p>\n\n\n\n<!--more-->\n\n\n\n<p>I hope this list is fairly exhaustive, but no doubt I will have missed several. Please feel free to leave a comment and I will update the post accordingly. And now, without further ado, are the papers.<\/p>\n\n\n\n<p><strong>Title:<\/strong> A Model to Search for Synthesizable Molecules<br><strong>Authors:<\/strong> John Bradshaw, Brooks Paige, Matt J Kusner, Marwin Segler, Jos\u00e9 Miguel Hern\u00e1ndez-Lobato<strong><br>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/1906.05221\">https:\/\/arxiv.org\/abs\/1906.05221<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> N-Gram Graph: A Simple Unsupervised Representation for Molecules<br><strong>Authors:<\/strong> Shengchao Liu, Mehmet F Demirel, Yingyu Liang<br><strong>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/1806.09206\">https:\/\/arxiv.org\/abs\/1806.09206<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Evaluating Protein Transfer Learning with TAPE<br><strong>Authors:<\/strong> Roshan Rao, Nicholas Bhattacharya, Neil Thomas, Yan Duan, Peter Chen, John Canny, Pieter Abbeel, Yun Song<br><strong>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/1906.08230\">https:\/\/arxiv.org\/abs\/1906.08230<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Cormorant: Covariant Molecular Neural Networks<br><strong>Authors:<\/strong> Brandon Anderson, Truong Son Hy, Risi Kondor<br><strong>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/1906.04015\">https:\/\/arxiv.org\/abs\/1906.04015<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Symmetry-adapted generation of 3d point sets for the targeted discovery of molecules<br><strong>Authors:<\/strong> Niklas Gebauer, Michael Gastegger, Kristof Sch\u00fctt<br><strong>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/1906.00957\">https:\/\/arxiv.org\/abs\/1906.00957<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Deep imitation learning for molecular inverse problems<br><strong>Authors:<\/strong> Eric Jonas<br><strong>Preprint:<\/strong> N\/A<\/p>\n\n\n\n<p><strong>Title:<\/strong> Depth-First Proof-Number Search with Heuristic Edge Cost and Application to Chemical Synthesis Planning<br><strong>Authors:<\/strong> Akihiro Kishimoto, Beat Buesser, Bei Chen, Adi Botea<br><strong>Preprint:<\/strong> N\/A<\/p>\n\n\n\n<p><strong>Title:<\/strong> Retrosynthesis Prediction with Conditional Graph Logic Network<br><strong>Authors:<\/strong> Hanjun Dai, Chengtao Li, Connor Coley, Bo Dai, Le Song<br><strong>Preprint:<\/strong> N\/A<\/p>\n\n\n\n<p><strong>Title:<\/strong> End-to-End Learning on 3D Protein Structure for Interface Prediction<br><strong>Authors:<\/strong> Raphael Townshend, Rishi Bedi, Patricia Suriana, Ron Dror<br><strong>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/1807.01297\">https:\/\/arxiv.org\/abs\/1807.01297<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Generative Models for Graph-Based Protein Design<br><strong>Authors:<\/strong> John Ingraham, Vikas Garg, Regina Barzilay, Tommi Jaakkola<br><strong>Preprint:<\/strong> (ICLR 2019 workshop version) <a href=\"https:\/\/openreview.net\/forum?id=SJgxrLLKOE\">https:\/\/openreview.net\/forum?id=SJgxrLLKOE<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> A Stratified Approach to Robustness for Randomly Smoothed Classifiers<br><strong>Authors:<\/strong> Guang-He Lee, Yang Yuan, Shiyu Chang, Tommi Jaakkola<br><strong>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/1906.04948\">https:\/\/arxiv.org\/abs\/1906.04948<\/a><\/p>\n","protected":false},"excerpt":{"rendered":"<p>NeurIPS is the largest machine learning conference (by number of participants), with over 8,000 in 2017. This year, the conference will be held in Vancouver, Canada from 8th-14th December. Recently, the list of accepted papers was announced, with 1430 papers accepted. Here, I will highlight several of potential interest to the chem-\/bio-informatics communities. Given the [&hellip;]<\/p>\n","protected":false},"author":50,"featured_media":0,"comment_status":"closed","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"nf_dc_page":"","wikipediapreview_detectlinks":true,"_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"ngg_post_thumbnail":0,"_jetpack_memberships_contains_paid_content":false,"footnotes":""},"categories":[187,52,189,202,201],"tags":[248,135,134],"ppma_author":[535],"class_list":["post-5139","post","type-post","status-publish","format-standard","hentry","category-cheminformatics","category-conferences","category-machine-learning","category-proteins","category-small-molecules","tag-conference","tag-proteins","tag-small-molecules"],"jetpack_featured_media_url":"","jetpack_sharing_enabled":true,"authors":[{"term_id":535,"user_id":50,"is_guest":0,"slug":"fergus2","display_name":"Fergus Imrie","avatar_url":"https:\/\/secure.gravatar.com\/avatar\/19c18fa7f4d0a2aecc5f69760c6a9f2fc9b493dfe45b1fd333ccb447db9d6a90?s=96&d=mm&r=g","0":null,"1":"","2":"","3":"","4":"","5":"","6":"","7":"","8":""}],"_links":{"self":[{"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/posts\/5139","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/users\/50"}],"replies":[{"embeddable":true,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/comments?post=5139"}],"version-history":[{"count":2,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/posts\/5139\/revisions"}],"predecessor-version":[{"id":5141,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/posts\/5139\/revisions\/5141"}],"wp:attachment":[{"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/media?parent=5139"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/categories?post=5139"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/tags?post=5139"},{"taxonomy":"author","embeddable":true,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/ppma_author?post=5139"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}