[HTML][HTML] Quantitative non-targeted analysis: bridging the gap between contaminant discovery and risk characterization

JP McCord, LC Groff II, JR Sobus - Environment international, 2022 - Elsevier
Chemical risk assessments follow a long-standing paradigm that integrates hazard, dose–
response, and exposure information to facilitate quantitative risk characterization. Targeted …

Discovery of a structural class of antibiotics with explainable deep learning

F Wong, EJ Zheng, JA Valeri, NM Donghia… - Nature, 2024 - nature.com
The discovery of novel structural classes of antibiotics is urgently needed to address the
ongoing antibiotic resistance crisis,,,,,,,–. Deep learning approaches have aided in exploring …

NPClassifier: a deep neural network-based structural classification tool for natural products

HW Kim, M Wang, CA Leber, LF Nothias… - Journal of Natural …, 2021 - ACS Publications
Computational approaches such as genome and metabolome mining are becoming
essential to natural products (NPs) research. Consequently, a need exists for an automated …

Understanding the chemodiversity of plants: Quantification, variation and ecological function

H Petrén, RA Anaia, KS Aragam… - Ecological …, 2024 - Wiley Online Library
Plants produce a great number of phytochemicals serving a variety of different functions.
Recently, the chemodiversity of these compounds (ie, the diversity of compounds produced …

ChemMine tools: an online service for analyzing and clustering small molecules

TWH Backman, Y Cao, T Girke - Nucleic acids research, 2011 - academic.oup.com
ChemMine Tools is an online service for small molecule data analysis. It provides a web
interface to a set of cheminformatics and data mining tools that are useful for various …

[HTML][HTML] Foundations of Population-based SHM, Part II: Heterogeneous populations–Graphs, networks, and communities

J Gosliga, PA Gardner, LA Bull, N Dervilis… - Mechanical Systems and …, 2021 - Elsevier
This paper is the second in a series of three which aims to provide a basis for Population-
Based Structural Health Monitoring (PBSHM); a new technology which will allow transfer of …

LigRMSD: A web server for automatic structure matching and RMSD calculations among identical and similar compounds in protein-ligand docking

JL Velázquez-Libera, F Durán-Verdugo… - …, 2020 - academic.oup.com
Motivation Root mean square deviation (RMSD) is one of the most useful and
straightforward features for structural comparison between different conformations of the …

Martinize2 and vermouth: Unified framework for topology generation

PC Kroon, F Grünewald, J Barnoud… - arXiv preprint arXiv …, 2022 - arxiv.org
Ongoing advances in force field and computer hardware development enable the use of
molecular dynamics (MD) to simulate increasingly complex systems with the ultimate goal of …

The many dimensions of phytochemical diversity: linking theory to practice

WC Wetzel, SR Whitehead - Ecology letters, 2020 - Wiley Online Library
Research on the ecological and evolutionary roles of phytochemicals has recently
progressed from studying single compounds to examining chemical diversity itself. A key …

AI on drugs: Can artificial intelligence accelerate drug development? Evidence from a large-scale examination of bio-pharma firms

B Lou, L Wu - Evidence from a Large-scale Examination of Bio …, 2021 - papers.ssrn.com
Advances in artificial intelligence (AI) could potentially reduce the complexities and costs in
drug discovery. Using a resource-based view, we conceptualize an AI innovation capability …