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
Reads0
Chats0
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
Citations
More filters
Journal ArticleDOI
CRISPR/Cas-based strategy for unearthing hidden chemical space from microbial genomes
Sa Xiao,Zixin Deng,Jiangtao Gao +2 more
TL;DR: In this article, the authors discuss the promise and obstacles associated with using CRISPR/Cas systems to discover novel natural products in the field of natural products discovery, but most of the work has been confined to known metabolite studies.
Book ChapterDOI
Bridging the Gap Between Nanotoxicological Data and the Critical Structure–Activity Relationships
Journal ArticleDOI
Artificial intelligence for gastric cancer: can we make further progress?
Journal ArticleDOI
Dose Optimization of Aditoprim-Sulfamethoxazole Combinations Against Trueperella pyogenes From Patients With Clinical Endometritis by Using Semi-mechanistic PK/PD Model
Muhammad Kashif Maan,Tamoor Hamid Chaudhry,Adeel Sattar,Muhammad Abu Bakr Shabbir,Saeed Ahmed,Kun Mi,W. W. Ahmed,Shuyu Xie,Li Xin,Lingli Huang +9 more
TL;DR: In this paper, the authors studied the antimicrobial effect of aditoprim, a novel dihydrofolate reductase inhibitor and its synergistic effect with sulfamethoxazole.
Journal ArticleDOI
Framework for disruptive AI/ML Innovation
Wim Verleyen,William McGinnis +1 more
TL;DR: In this article , a framework for disruptive AI/ML Innovation (AMI) has been proposed, which enables C-suite executive leaders to define a business plan and manage a set of technological dependencies for building AI and ML Solutions.
References
More filters
Journal ArticleDOI
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
TL;DR: This work presents DESeq2, a method for differential analysis of count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates, which enables a more quantitative analysis focused on the strength rather than the mere presence of differential expression.
Journal ArticleDOI
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li,Richard Durbin +1 more
TL;DR: Burrows-Wheeler Alignment tool (BWA) is implemented, a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps.
Journal ArticleDOI
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.
TL;DR: EdgeR as mentioned in this paper is a Bioconductor software package for examining differential expression of replicated count data, which uses an overdispersed Poisson model to account for both biological and technical variability and empirical Bayes methods are used to moderate the degree of overdispersion across transcripts, improving the reliability of inference.
Journal ArticleDOI
One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products
TL;DR: A simple and highly efficient method to disrupt chromosomal genes in Escherichia coli in which PCR primers provide the homology to the targeted gene(s), which should be widely useful, especially in genome analysis of E. coli and other bacteria.
Journal ArticleDOI
Extended-Connectivity Fingerprints
David Rogers,Mathew Hahn +1 more
TL;DR: A description of their implementation has not previously been presented in the literature, and ECFPs can be very rapidly calculated and can represent an essentially infinite number of different molecular features.