Proteochemometric modeling as a tool to design selective compounds and for extrapolating to novel targets

GJP Van Westen, JK Wegner, AP IJzerman… - …, 2011 - pubs.rsc.org
'Proteochemometric modeling'is a bioactivity modeling technique founded on the description
of both small molecules (the ligands), and proteins (the targets). By combining those two …

Polypharmacology modelling using proteochemometrics (PCM): recent methodological developments, applications to target families, and future prospects

I Cortés-Ciriano, QU Ain, V Subramanian… - …, 2015 - pubs.rsc.org
Proteochemometric (PCM) modelling is a computational method to model the bioactivity of
multiple ligands against multiple related protein targets simultaneously. Hence it has been …

[HTML][HTML] Current computational methods for predicting protein interactions of natural products

AFA Moumbock, J Li, P Mishra, M Gao… - Computational and …, 2019 - Elsevier
Natural products (NPs) are an indispensable source of drugs and they have a better
coverage of the pharmacological space than synthetic compounds, owing to their high …

A novel chemogenomics analysis of G protein-coupled receptors (GPCRs) and their ligands: a potential strategy for receptor de-orphanization

E van der Horst, JE Peironcely, AP IJzerman… - Bmc Bioinformatics, 2010 - Springer
Background G protein-coupled receptors (GPCRs) represent a family of well-characterized
drug targets with significant therapeutic value. Phylogenetic classifications may help to …

Proteochemometric modeling in a Bayesian framework

I Cortes-Ciriano, GJP van Westen, EB Lenselink… - Journal of …, 2014 - Springer
Proteochemometrics (PCM) is an approach for bioactivity predictive modeling which models
the relationship between protein and chemical information. Gaussian Processes (GP) …

Identification of allosteric modulators of metabotropic glutamate 7 receptor using proteochemometric modeling

G Tresadern, AA Trabanco… - Journal of Chemical …, 2017 - ACS Publications
Proteochemometric modeling (PCM) is a computational approach that can be considered an
extension of quantitative structure–activity relationship (QSAR) modeling, where a single …

Mapping small molecule binding data to structural domains

FA Kruger, R Rostom, JP Overington - BMC bioinformatics, 2012 - Springer
Background Large-scale bioactivity/SAR Open Data has recently become available, and this
has allowed new analyses and approaches to be developed to help address the productivity …

A molecular informatics view on best practice in multi-parameter compound optimization

SJ Lusher, R McGuire, R Azevedo, JW Boiten… - Drug discovery today, 2011 - Elsevier
The difference between biologically active molecules and drugs is that the latter balance an
array of related and unrelated properties required for administration to patients. Inevitability …

Chemogenomics approaches for receptor deorphanization and extensions of the chemogenomics concept to phenotypic space

E van der Horst, JE Peironcely… - Current topics in …, 2011 - ingentaconnect.com
Chemogenomic approaches, which link ligand chemistry to bioactivity against targets (and,
by extension, to phenotypes) are becoming more and more important due to the increasing …

[HTML][HTML] Characterizing protein domain associations by Small-molecule ligand binding

Q Li, T Cheng, Y Wang, SH Bryant - Journal of proteome science …, 2012 - ncbi.nlm.nih.gov
Background Protein domains are evolutionarily conserved building blocks for protein
structure and function, which are conventionally identified based on protein sequence or …