A Deep Learning Approach to Antibiotic Discovery
Jonathan M. Stokes,Kevin Yang,Kyle Swanson,Wengong Jin,Andres Cubillos-Ruiz,Nina M. Donghia,Craig R. MacNair,Shawn French,Lindsey A. Carfrae,Zohar Bloom-Ackermann,Victoria M. Tran,Anush Chiappino-Pepe,Ahmed H. Badran,Ian W. Andrews,Ian W. Andrews,Ian W. Andrews,Emma J. Chory,George M. Church,Eric D. Brown,Tommi S. Jaakkola,Regina Barzilay,James J. Collins +21 more
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TLDR
A deep neural network capable of predicting molecules with antibacterial activity is trained and a molecule from the Drug Repurposing Hub-halicin- is discovered that is structurally divergent from conventional antibiotics and displays bactericidal activity against a wide phylogenetic spectrum of pathogens.About:
This article is published in Cell.The article was published on 2020-02-20 and is currently open access. It has received 1002 citations till now.read more
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Mining genomes to illuminate the specialized chemistry of life
TL;DR: The rapid accumulation of genomic information has revealed that the metabolic capacity of virtually all organisms is vastly underappreciated as discussed by the authors, and genome mining technologies are accelerating metabolite discovery in all organisms, including protists, plants and animals.
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Artificial intelligence and machine learning-aided drug discovery in central nervous system diseases: State-of-the-arts and future directions
Sezen Vatansever,Avner Schlessinger,Daniel Wacker,H. Ümit Kaniskan,Jian Jin,Ming-Ming Zhou,Bin Zhang +6 more
TL;DR: This review comprehensively summarizes AI/ML‐powered pharmaceutical discovery efforts and their implementations in the central nervous system (CNS) area, focusing on blood–brain barrier permeability prediction and implementation into therapeutic discovery for neurological diseases.
Posted Content
On the Opportunities and Risks of Foundation Models.
Rishi Bommasani,Drew A. Hudson,Ehsan Adeli,Russ B. Altman,Simran Arora,Sydney von Arx,Michael S. Bernstein,Jeannette Bohg,Antoine Bosselut,Emma Brunskill,Erik Brynjolfsson,Shyamal Buch,Dallas Card,Rodrigo Castellon,Niladri S. Chatterji,Annie Chen,Kathleen Creel,Jared Davis,Dora Demszky,Chris Donahue,Moussa Doumbouya,Esin Durmus,Stefano Ermon,John Etchemendy,Kawin Ethayarajh,Li Fei-Fei,Chelsea Finn,Trevor Gale,Lauren Gillespie,Karan Goel,Noah D. Goodman,Shelby Grossman,Neel Guha,Tatsunori Hashimoto,Peter Henderson,John Hewitt,Daniel E. Ho,Jenny Hong,Kyle Hsu,Jing Huang,Thomas Icard,Saahil Jain,Dan Jurafsky,Pratyusha Kalluri,Siddharth Karamcheti,Geoff Keeling,Fereshte Khani,Omar Khattab,Pang Wei Koh,Mark Krass,Ranjay Krishna,Rohith Kuditipudi,Ananya Kumar,Faisal Ladhak,Mina Lee,Tony Lee,Jure Leskovec,Isabelle Levent,Xiang Lisa Li,Xuechen Li,Tengyu Ma,Ali Ahmad Malik,Christopher D. Manning,Suvir Mirchandani,Eric Mitchell,Zanele Munyikwa,Suraj Nair,Avanika Narayan,Deepak Narayanan,Ben Newman,Allen Nie,Juan Carlos Niebles,Hamed Nilforoshan,Julian Nyarko,Giray Ogut,Laurel Orr,Isabel Papadimitriou,Joon Sung Park,Chris Piech,Eva Portelance,Christopher Potts,Aditi Raghunathan,Rob Reich,Hongyu Ren,Frieda Rong,Yusuf H. Roohani,Camilo Ruiz,Jack Ryan,Christopher Ré,Dorsa Sadigh,Shiori Sagawa,Keshav Santhanam,Andy Shih,Krishnan Srinivasan,Alex Tamkin,Rohan Taori,Armin W. Thomas,Florian Tramèr,Rose E. Wang,William Yang Wang,Bohan Wu,Jiajun Wu,Yuhuai Wu,Sang Michael Xie,Michihiro Yasunaga,Jiaxuan You,Matei Zaharia,Michael Zhang,Tianyi Zhang,Xikun Zhang,Yuhui Zhang,Lucia Zheng,Kaitlyn Zhou,Percy Liang +113 more
TL;DR: The authors provides a thorough account of the opportunities and risks of foundation models, ranging from their capabilities (e.g., language, vision, robotics, reasoning, human interaction) and technical principles(e. g.g. model architectures, training procedures, data, systems, security, evaluation, theory) to their applications.
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From Microbiome to Traits: Designing Synthetic Microbial Communities for Improved Crop Resiliency
TL;DR: How to translate the rationale for delivering stable and effective inoculants for agriculture by tailoring SynComs with microorganisms possessing traits for robust colonization, prevalence throughout plant development and specific beneficial functions for plants is discussed.
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Anatomy of Catastrophic Forgetting: Hidden Representations and Task Semantics
TL;DR: It is found that deeper layers are disproportionately the source of forgetting, and a study of methods to mitigate forgetting illustrates that they act to stabilize deeper layers.
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