Free Energy Method Set 1 (Stage 1) -

Grand Challenge 2

Free Energy Set 1 (Stage 1) - Kendall's Tau

Free Energy Set 1 (Stage 1) - RMSEc

Submission ID Group/PI name Submitter Name Number of ligands Kendalls Tau Kendalls Tau Error RMSEc (kcal/mol) RMSEc Uncertainty Protocol Name from Protocol File List of Software Packages Used Method Type
1bhkb In silico Drug Design Master doha naga 15 0.11 0.19 0.70 0.23 UCSF Chimera/MGLTools/AutoDock Vina/RDKIT/Knime Method 1 Vina Structure-based scoring
2yqgz In silico Drug Design Master Olivier Bequignon 15 0.11 0.19 0.70 0.23 UCSF Chimera/MGLTools/AutoDock Vina/RDKIT/Knime Method 1 Vina Structure-based scoring
5bvwx     15 0.12 0.19 0.68 0.20 In_house_machine_learning_score/Maestro/GOLD In-house machine learning score Structure-based scoring
7hw77 Julien Michel Julien Michel 15 0.04 0.18 2.95 0.86 alchemical free energy protocol without network analysis FESetup, NetworkX Free energy
8nbnv Merck Yuan Hu 15 0.04 0.14 5.50 1.22 MMGBSA ranking from 20 MD replicates MMGBSA Structure-based scoring
a3c8k Julien Michel Julien Michel 15 -0.03 0.21 3.38 1.08 alchemical free energy protocol with average network analysis FESetup, NetworkX Free energy
axxmu Xiaoqin Zou Xiaoqin Zou 15 0.29 0.15 1.06 0.20 MMPBSA MMPBSA Structure-based scoring
bolbu Mingyue Zheng Zhaoping Xiong 15 0.17 0.20 2.25 0.20 monte carlo free energy perturbation MCPro Free energy
nrdge Carlos Camacho Bentley Wingert 15 0.39 0.15 0.91 0.19 quasi-exact Quasi exact method Structure-based scoring
o8bk4 Zoe Cournia Christina Athanasiou 15 0.06 0.17 2.55 0.30 Free energy perturbation calculations FEP-Desmond, Visual Free energy
oo7gj Nagamani Sukumar Pinaki Saha 15 -0.37 0.15 1.74 0.27 MOE MOE Structure-based scoring
pbjwu Julien Michel Julien Michel 15 0.06 0.21 1.85 0.30 Expert opinion Visual Structure-based scoring
xr834     15 0.02 0.18 0.75 0.19 Tscore/Maestro/GOLD In-house machine learning score Structure-based scoring
1t2p5 Rognan, Didier Didier ROGNAN 15 -0.15 0.19 2.17 0.35 Surflex/GRIM Interaction Pattern Similarity/ HYDE (Protocol 2) Ichem-GRIM, HYDE Structure-based scoring
2o6iv Rognan, Didier Didier ROGNAN 15 -0.10 0.23 2.44 0.44 Surflex/Grim/Hyde (Protocol 1) Ichem-GRIM, HYDE Structure-based scoring
2umsq Alexander D MacKerell Jr. Sirish Lakkaraju 15 0.03 0.20 0.69 0.21 SILCS-MC SILCS (Site Identification by Ligand Competitive Saturation) Structure-based scoring
3qyiy Xiaoqin Zou Xiaoqin Zou 15 0.29 0.15 1.06 0.19 MMPBSA Amber-MMPBSA Structure-based scoring
4ynsp Rognan, Didier Didier ROGNAN 15 -0.10 0.24 1.88 0.36 Surflex/GRIM Interaction Pattern Similarity/ HYDE (Protocol3) Ichem-GRIM, HYDE Structure-based scoring
6pf5g     15 -0.15 0.22 1.07 0.26 glide_ensemble_docking Glide-XP Structure-based scoring
87x7c In silico Drug Design Master doha naga 15 0.11 0.19 0.70 0.23 UCSF Chimera/MGLTools/AutoDock Vina/RDKIT/CDK/Knime AutoDock Vina Structure-based scoring
aaveo David Evans Matthew Baumgartner 15 -0.46 0.19 1.97 0.40 align_close Smina, Visual Structure-based scoring
c0l1t     15 0.12 0.19 0.68 0.20 In_house_machine_learning_score/Maestro/GOLD In-house machine learning score Structure-based scoring
cs2lm Stefano Moro Stefano Moro 15 0.08 0.17 4.61 0.65 MMS DockBench CrossDocking - MMGBSA Method 1 Amber-MMGBSA Structure-based scoring
cwip8 Alexander D MacKerell Jr. Sirish Lakkaraju 15 0.32 0.19 0.85 0.22 SILCS-MC SILCS (Site Identification by Ligand Competitive Saturation) Structure-based scoring
dlvjf Alfonso T. Garcia-Sosa Alfonso T. Garcia-Sosa 15 -0.10 0.17 1.28 0.18 grandconsen_qpld_XP_SP_Vina_AD4 qpld, Glide-XP, Glide-SP, AutoDock Vina, AutoDock 4 Structure-based scoring
dnil6     15 0.02 0.18 0.75 0.18 In_house_machine_learning_score/Maestro/GOLD In-house machine learning score Structure-based scoring
ec84y     15 0.07 0.20 1.15 0.35 xScore xScore Structure-based scoring
fzr1f Enrico Purisima Enrico Purisima 15 0.15 0.14 0.77 0.14 SIE Method 1 SIE (Solvated Interaction Energy) Structure-based scoring
g7q2q In silico Drug Design Master Olivier Bequignon 15 0.11 0.19 0.70 0.23 UCSF Chimera/MGLTools/AutoDock Vina/RDKIT/CDK/Knime AutoDock Vina Structure-based scoring
gzd7a David Evans Matthew Baumgartner 15 0.04 0.20 0.79 0.17 smina_ens Smina Structure-based scoring
k2um8 Alfonso T. Garcia-Sosa Alfonso T. Garcia-Sosa 15 -0.10 0.17 1.28 0.18 grandconsen_qpld_XP_SP_Vina_AD4 qpld, Glide-XP, Glide-SP, AutoDock Vina, AutoDock 4 Structure-based scoring
keum2 Nagamani Sukumar Pinaki Saha 15 -0.37 0.15 1.74 0.27 MOE GBVI/WSA scoring Structure-based scoring
l8rmr Steve Jones Oleksandr Yakovenko 15 0.28 0.14 0.92 0.14 LIE LIE (Linear Interaction Energy Model) Structure-based scoring
lpcmd Mingyue Zheng Zhaoping Xiong 15 0.17 0.20 2.25 0.20 Glide xp Glide-XP Ligand-based scoring
mseke David Koes David Koes 15 -0.02 0.22 0.98 0.24 vina Smina Structure-based scoring
o3nlu Mingyue Zheng Zhaoping Xiong 15 0.17 0.20 2.25 0.20 Glide xp Glide-XP Structure-based scoring
pcy26 Max Totrov Maxim Totrov 15 -0.08 0.20 0.80 0.20 ICM/APF 3D QSAR Molsoft ICM Structure-based scoring
pgbuh Charles L. Brooks III Xinqiang Ding 15 0.18 0.20 0.66 0.20 Scoring using AutoDock Vina AutoDock Vina Structure-based scoring
tdbsk Alexander D MacKerell Jr. Sirish Lakkaraju 15 0.19 0.16 2.34 0.42 SILCS-MC SILCS (Site Identification by Ligand Competitive Saturation) Structure-based scoring
vskkl David R. Bevan Anne Brown 15 -0.05 0.15 3.95 0.72 AutoDock Vina AutoDock Vina Structure-based scoring
yprv4 Garland R. Marshall Flavio Ballante 15 -0.30 0.17 1.09 0.19 FBRHGRM Method 1 AutoDock Vina, Clusterizer-DockAccessor Structure-based scoring