Woody Sherman

Molecular Biology · 2006–2020

A researcher in the Science corpus: 13 papers; trusts 5 researchers and is trusted by 14 researchers here, as inferred from the citation graph.

Subfields

• Molecular Biology — 171 citations into it; #5,584 of 17,773 by trust here, #4,020 by citations
• Computational Theory and Mathematics — 91 citations into it; #3,609 of 12,182 by trust here, #447 by citations
• Materials Chemistry — 63 citations into it
• Computational Chemistry & Drug Discovery — 38 citations into it; #264 of 425 by trust here, #341 by citations
• Organic Chemistry — 34 citations into it; #569 of 1,495 by trust here, #518 by citations

Whom Woody Sherman trusts overall

Their strongest outbound trust, strongest first, inferred from their citations.

1. Richard A. Friesner
2. W. L. Jorgensen
3. Matthew P. Jacobson
4. Charles H. Bennett
5. Julian Tirado-Rives

Who trusts Woody Sherman overall

1. Elizabeth Yuriev
2. W. Sinko
3. Shengyou Huang
4. Antonio Lavecchia
5. Steffen Lindert
6. Mark Agostino
7. Xuanyu Meng
8. Elizabeth Dong Nguyen
9. Xiaoqin Zou
10. James Andrew McCammon

Papers from Woody Sherman's perspective

Ordered by how strongly the researchers Woody Sherman trusts endorse each paper. Same corpus, a different order for every researcher.

1. Novel procedure for modeling ligand/receptor induced fit effects.
2. Protein Kinase Inhibitors: Insights into Drug Design from Structure (Science)
3. A fast method of molecular shape comparison: A simple application of a Gaussian description of molecular shape
4. Development and Testing of the OPLS All-Atom Force Field on Conformational Energetics and Properties of Organic Liquids
5. Evaluating Virtual Screening Methods: Good and Bad Metrics for the "Early Recognition" Problem
6. Efficient estimation of free energy differences from Monte Carlo data
7. PHASE: a new engine for pharmacophore perception, 3D QSAR model development, and 3D database screening: 1. Methodology and preliminary results
8. How Fast-Folding Proteins Fold (Science)
9. A shape-based 3-D scaffold hopping method and its application to a bacterial protein-protein interaction.
10. An Algorithm for Finding the Smallest Set of Smallest Rings

Their papers

• Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments (2013) — 5,465 citations
• Novel procedure for modeling ligand/receptor induced fit effects. (2006) — 1,930 citations
• Accurate and reliable prediction of relative ligand binding potency in prospective drug discovery by way of a modern free-energy calculation protocol and force field. (2015) — 1,186 citations
• Analysis and comparison of 2D fingerprints: insights into database screening performance using eight fingerprint methods (2010) — 423 citations
• Large-Scale Systematic Analysis of 2D Fingerprint Methods and Parameters to Improve Virtual Screening Enrichments (2010) — 324 citations
• Use of an Induced Fit Receptor Structure in Virtual Screening (2006) — 658 citations
• Prediction of Absolute Solvation Free Energies using Molecular Dynamics Free Energy Perturbation and the OPLS Force Field. (2010) — 1,772 citations
• Relative Binding Free Energy Calculations in Drug Discovery: Recent Advances and Practical Considerations (2017) — 679 citations
• Rational Approaches to Improving Selectivity in Drug Design (2012) — 321 citations
• Alchemical Binding Free Energy Calculations in AMBER20: Advances and Best Practices for Drug Discovery (2020) — 312 citations
• Improved Docking of Polypeptides with Glide (2013) — 1,022 citations
• ConfGen: A Conformational Search Method for Efficient Generation of Bioactive Conformers (2010) — 401 citations
• Novel Method for Generating Structure-Based Pharmacophores Using Energetic Analysis (2009) — 301 citations