Comparative assessment of scoring functions on an updated benchmark: 1. Compilation of the test set

Y Li, Z Liu, J Li, L Han, J Liu, Z Zhao… - Journal of chemical …, 2014 - ACS Publications
Scoring functions are often applied in combination with molecular docking methods to
predict ligand binding poses and ligand binding affinities or to identify active compounds …

Comparative assessment of scoring functions on an updated benchmark: 2. Evaluation methods and general results

Y Li, L Han, Z Liu, R Wang - Journal of chemical information and …, 2014 - ACS Publications
Our comparative assessment of scoring functions (CASF) benchmark is created to provide
an objective evaluation of current scoring functions. The key idea of CASF is to compare the …

Comparative assessment of scoring functions on a diverse test set

T Cheng, X Li, Y Li, Z Liu, R Wang - Journal of chemical …, 2009 - ACS Publications
Scoring functions are widely applied to the evaluation of protein− ligand binding in structure-
based drug design. We have conducted a comparative assessment of 16 popular scoring …

Forging the basis for developing protein–ligand interaction scoring functions

Z Liu, M Su, L Han, J Liu, Q Yang, Y Li… - Accounts of chemical …, 2017 - ACS Publications
Conspectus In structure-based drug design, scoring functions are widely used for fast
evaluation of protein–ligand interactions. They are often applied in combination with …

Comparative assessment of scoring functions: the CASF-2016 update

M Su, Q Yang, Y Du, G Feng, Z Liu, Y Li… - Journal of chemical …, 2018 - ACS Publications
In structure-based drug design, scoring functions are often employed to evaluate protein–
ligand interactions. A variety of scoring functions have been developed so far, and thus …

CSAR benchmark exercise of 2010: selection of the protein–ligand complexes

JB Dunbar Jr, RD Smith, CY Yang… - Journal of chemical …, 2011 - ACS Publications
A major goal in drug design is the improvement of computational methods for docking and
scoring. The Community Structure Activity Resource (CSAR) aims to collect available data …

Statistical potential for modeling and ranking of protein–ligand interactions

H Fan, D Schneidman-Duhovny, JJ Irwin… - Journal of chemical …, 2011 - ACS Publications
Applications in structural biology and medicinal chemistry require protein–ligand scoring
functions for two distinct tasks:(i) ranking different poses of a small molecule in a protein …

Assessing protein–ligand interaction scoring functions with the CASF-2013 benchmark

Y Li, M Su, Z Liu, J Li, J Liu, L Han, R Wang - Nature protocols, 2018 - nature.com
Scoring functions are a group of computational methods widely applied in structure-based
drug design for fast evaluation of protein–ligand interactions. To date, a whole spectrum of …

An extensive test of 14 scoring functions using the PDBbind refined set of 800 protein− ligand complexes

R Wang, Y Lu, X Fang, S Wang - Journal of chemical information …, 2004 - ACS Publications
Fourteen popular scoring functions, ie, X-Score, DrugScore, five scoring functions in the
Sybyl software (D-Score, PMF-Score, G-Score, ChemScore, and F-Score), four scoring …

Supervised consensus scoring for docking and virtual screening

R Teramoto, H Fukunishi - Journal of chemical information and …, 2007 - ACS Publications
Docking programs are widely used to discover novel ligands efficiently and can predict
protein− ligand complex structures with reasonable accuracy and speed. However, there is …