Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments. - G. Madhavi Sastry; Matvey Adzhigirey; Tyler Day; Ramakrishna Annabhimoju; Woody Sherman (J. Comput. Aided Mol. Des., 2013)

Docking Covalent Inhibitors: A Parameter Free Approach To Pose Prediction and Scoring. - Kai Zhu; Kenneth W. Borrelli; Jeremy R. Greenwood; Tyler Day; Robert Abel; Ramy Farid; Edward Harder (J. Chem. Inf. Model., 2014)

Improving Accuracy, Diversity, and Speed with Prime Macrocycle Conformational Sampling. - Daniel J. Sindhikara; Steven A. Spronk; Tyler Day; Kenneth W. Borrelli; Daniel L. Cheney; Shana L. Posy (J. Chem. Inf. Model., 2017)