Complementing ultrafast shape recognition with an optical isomerism descriptor

T Zhou, K Lafleur, A Caflisch - Journal of Molecular Graphics and Modelling, 2010 - Elsevier
We introduce the mixed product of three vectors spanning four molecular locations as a
descriptor of optical isomerism. This descriptor is very efficient as it does not require …

Constant size descriptors for accurate machine learning models of molecular properties

CR Collins, GJ Gordon, OA Von Lilienfeld… - The Journal of …, 2018 - pubs.aip.org
Two different classes of molecular representations for use in machine learning of
thermodynamic and electronic properties are studied. The representations are evaluated by …

Matrix‐based molecular descriptors for prospective virtual compound screening

F Grisoni, D Reker, P Schneider, L Friedrich… - Molecular …, 2017 - Wiley Online Library
Molecular descriptors capture diverse structural information of molecules and are a
prerequisite for ligand‐based similarity searching. In this study, we introduce topological …

Auto-QChem: an automated workflow for the generation and storage of DFT calculations for organic molecules

AM Żurański, JY Wang, BJ Shields… - Reaction Chemistry & …, 2022 - pubs.rsc.org
This perspective describes Auto-QChem, an automatic, high-throughput and end-to-end
DFT calculation workflow that computes chemical descriptors for organic molecules …

[HTML][HTML] Applying machine learning to ultrafast shape recognition in ligand-based virtual screening

E Bonanno, JP Ebejer - Frontiers in pharmacology, 2020 - frontiersin.org
Ultrafast Shape Recognition (USR), along with its derivatives, are Ligand-Based Virtual
Screening (LBVS) methods that condense 3-dimensional information about molecular …

Can we separate active from inactive conformations?

DJ Diller, KM Merz - Journal of computer-aided molecular design, 2002 - Springer
Molecular modeling methodologies such as molecular docking, pharmacophore modeling,
and 3D-QSAR, rely on conformational searches of small molecules as a starting point. All of …

Mold2, Molecular Descriptors from 2D Structures for Chemoinformatics and Toxicoinformatics

H Hong, Q Xie, W Ge, F Qian, H Fang… - Journal of chemical …, 2008 - ACS Publications
Research applications in chemoinformatics and toxicoinformatics increasingly use
representations of molecules in the form of numerical descriptors that capture the structural …

On entropy-based molecular descriptors: Statistical analysis of real and synthetic chemical structures

M Dehmer, K Varmuza, S Borgert… - Journal of chemical …, 2009 - ACS Publications
This paper presents an analysis of entropy-based molecular descriptors. Specifically, we
use real chemical structures, as well as synthetic isomeric structures, and investigate …

Development of new hydrogen-bond descriptors and their application to comparative molecular field analyses

M Böhm, G Klebe - Journal of medicinal chemistry, 2002 - ACS Publications
Knowledge-based descriptors extracted from composite crystal-field environments in crystal
data have been developed for the description of interaction properties of small molecules …

Development of 3-dimensional molecular descriptors

M Randić, B Jerman-Blaẑić, N Trinajstić - Computers & chemistry, 1990 - Elsevier
Structural invariants used currently as molecular descriptors in structure-property (SPR) and
structure-activity relationship (SAR) studies are based on molecular graphs rather than on a …