{"id":5851,"date":"2020-07-13T21:02:21","date_gmt":"2020-07-13T20:02:21","guid":{"rendered":"https:\/\/www.blopig.com\/blog\/?p=5851"},"modified":"2020-10-20T15:38:33","modified_gmt":"2020-10-20T14:38:33","slug":"icml-2020-chemistry-biology-papers","status":"publish","type":"post","link":"https:\/\/www.blopig.com\/blog\/2020\/07\/icml-2020-chemistry-biology-papers\/","title":{"rendered":"ICML 2020: Chemistry \/ Biology papers"},"content":{"rendered":"\n<p>ICML is one of the largest machine learning conferences and, like many other conferences this year, is running virtually from 12th &#8211; 18th July.<\/p>\n\n\n\n<p>The <a href=\"https:\/\/icml.cc\/Conferences\/2020\/Schedule?type=Poster\" data-type=\"URL\" data-id=\"https:\/\/icml.cc\/Conferences\/2020\/Schedule?type=Poster\">list of accepted papers can be found here<\/a>, with 1,088 papers accepted out of 4,990 submissions (22% acceptance rate). Similar to <a href=\"https:\/\/www.blopig.com\/blog\/2019\/10\/neurips-2019-chemistry-biology-papers\/\">my post on NeurIPS 2019 papers<\/a>, I will highlight several of potential interest to the chem-\/bio-informatics communities. As before, 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>In addition to the various papers, there is also a <a href=\"https:\/\/icml.cc\/Conferences\/2020\/Schedule?showEvent=5721\">computational biology workshop<\/a> (<a href=\"https:\/\/icml-compbio.github.io\/index.html\">workshop site<\/a>)<\/p>\n\n\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> Improving Molecular Design by Stochastic Iterative Target Augmentation<br><strong>Authors:<\/strong> Kevin Yang, Wengong Jin, Kyle Swanson, Regina Barzilay, Tommi Jaakkola<strong><br>Preprint: <\/strong><a href=\"https:\/\/arxiv.org\/abs\/2002.04720\">https:\/\/arxiv.org\/abs\/2002.04720<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Hierarchical Generation of Molecular Graphs using Structural Motifs<br><strong>Authors:<\/strong> Wengong Jin, Regina Barzilay, Tommi Jaakkola<br><strong>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/2002.03230\">https:\/\/arxiv.org\/abs\/2002.03230<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Composing Molecules with Multiple Property Constraints<br><strong>Authors:<\/strong> Wengong Jin, Regina Barzilay, Tommi Jaakkola<strong><br>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/2002.03244\">https:\/\/arxiv.org\/abs\/2002.03244<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> A Generative Model for Molecular Distance Geometry<br><strong>Authors:<\/strong> Gregor Simm, Jose Miguel Hernandez-Lobato<strong><br>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/1909.11459\">https:\/\/arxiv.org\/abs\/1909.11459<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Reinforcement Learning for Molecular Design Guided by Quantum Mechanics<br><strong>Authors: <\/strong>Gregor Simm, Robert Pinsler, Jose Miguel Hernandez-Lobato<strong><br>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/2002.07717\">https:\/\/arxiv.org\/abs\/2002.07717<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Learning to Navigate in Synthetically Accessible Chemical Space Using Reinforcement Learning<br><strong>Authors: <\/strong>Sai Krishna Gottipati, Boris Sattarov, Sufeng Niu, Haoran Wei, Yashaswi Pathak, Shengchao Liu, Shengchao Liu, Simon Blackburn, Karam Thomas, Connor Coley, Jian Tang, Sarath Chandar, Yoshua Bengio<strong><br>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/2004.12485\">https:\/\/arxiv.org\/abs\/2004.12485<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Retro*: Learning Retrosynthetic Planning with Neural Guided A* Search<br><strong>Authors:<\/strong> Binghong Chen, Chengtao Li, Hanjun Dai, Le Song<strong><br>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/2006.15820\">https:\/\/arxiv.org\/abs\/2006.15820<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> A Graph to Graphs Framework for Retrosynthesis Prediction<br><strong>Authors: <\/strong>Chence Shi, Minkai Xu, Hongyu Guo, Ming Zhang, Jian Tang<strong><br>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/2003.12725\">https:\/\/arxiv.org\/abs\/2003.12725<\/a><\/p>\n\n\n\n<p><strong>Title:<\/strong> Population-Based Black-Box Optimization for Biological Sequence Design<br><strong>Authors: <\/strong>Christof Angermueller, David Belanger, Andreea Gane, Zelda Mariet, David Dohan, Kevin Murphy, Lucy Colwell, D. Sculley<strong><br>Preprint:<\/strong> <a href=\"https:\/\/arxiv.org\/abs\/2006.03227\">https:\/\/arxiv.org\/abs\/2006.03227<\/a><\/p>\n","protected":false},"excerpt":{"rendered":"<p>ICML is one of the largest machine learning conferences and, like many other conferences this year, is running virtually from 12th &#8211; 18th July. The list of accepted papers can be found here, with 1,088 papers accepted out of 4,990 submissions (22% acceptance rate). Similar to my post on NeurIPS 2019 papers, I will highlight [&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":[327,248,325,172,135,326,134],"ppma_author":[535],"class_list":["post-5851","post","type-post","status-publish","format-standard","hentry","category-cheminformatics","category-conferences","category-machine-learning","category-proteins","category-small-molecules","tag-chemical-space","tag-conference","tag-de-novo-design","tag-machine-learning","tag-proteins","tag-reactions-retrosynthesis","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\/5851","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=5851"}],"version-history":[{"count":3,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/posts\/5851\/revisions"}],"predecessor-version":[{"id":6173,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/posts\/5851\/revisions\/6173"}],"wp:attachment":[{"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/media?parent=5851"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/categories?post=5851"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/tags?post=5851"},{"taxonomy":"author","embeddable":true,"href":"https:\/\/www.blopig.com\/blog\/wp-json\/wp\/v2\/ppma_author?post=5851"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}