Determination of receptor-bound drug conformations by QSAR using flexible fitting to derive a molecular similarity index. - Carlos Alberto Montanari; M. S. Tute; A. E. Beezer; Julie C. Mitchell (J. Comput. Aided Mol. Des., 1996)

Coupled optimization in protein docking. - Julie C. Mitchell; J. Ben Rosen; Andrew T. Phillips; Lynn F. Ten Eyck (RECOMB, 1999)

Iterative Convex Quadratic Approximation for Global Optimization in Protein Docking. - Roummel F. Marcia; Julie C. Mitchell; J. Ben Rosen (Comput. Optim. Appl., 2005)

Metal reduction kinetics in Shewanella. - Raman Lall; Julie C. Mitchell (Bioinform., 2007)

Multi-funnel optimization using Gaussian underestimation. - Roummel F. Marcia; Julie C. Mitchell; J. Ben Rosen (J. Glob. Optim., 2007)

Global optimization in protein docking using clustering, underestimation and semidefinite programming. - Roummel F. Marcia; Julie C. Mitchell; Stephen J. Wright 001 (Optim. Methods Softw., 2007)

Generating Uniform Incremental Grids on SO(3) Using the Hopf Fibration. - Anna Yershova; Steven M. LaValle; Julie C. Mitchell (WAFR, 2008)

Optimal design of thermally stable proteins. - Ryan M. Bannen; Vanitha Suresh; George N. Phillips Jr.; Stephen J. Wright 001; Julie C. Mitchell (Bioinform., 2008)

KFC Server: interactive forecasting of protein interaction hot spots. - Steven J. Darnell; Laura H. LeGault; Julie C. Mitchell (Nucleic Acids Res., 2008)

Sampling Rotation Groups by Successive Orthogonal Images. - Julie C. Mitchell (SIAM J. Sci. Comput., 2008)

CUSA and CUDE: GPU-Accelerated Methods for Estimating Solvent Accessible Surface Area and Desolvation. - David Dynerman; Erick Butzlaff; Julie C. Mitchell (J. Comput. Biol., 2009)

Structure-Based Predictive Models for Allosteric Hot Spots. - Omar N. A. Demerdash; Michael D. Daily; Julie C. Mitchell (PLoS Comput. Biol., 2009)

Generating Uniform Incremental Grids on SO(3) Using the Hopf Fibration. - Anna Yershova; Swati Jain; Steven M. LaValle; Julie C. Mitchell (Int. J. Robotics Res., 2010)

chipD: a web tool to design oligonucleotide probes for high-density tiling arrays. - Yann S. Dufour; Gary E. Wesenberg; Andrew J. Tritt; Jeremy D. Glasner; Nicole T. Perna; Julie C. Mitchell; Timothy J. Donohue (Nucleic Acids Res., 2010)

Optimizing ethanol production selectivity. - Raman Lall; Timothy J. Donohue; Simeone Marino; Julie C. Mitchell (Math. Comput. Model., 2011)

DBSI server: DNA binding site identifier. - Shravan Sukumar; Xiaolei Zhu 001; Spencer S. Ericksen; Julie C. Mitchell (Bioinform., 2016)

dbAMEPNI: a database of alanine mutagenic effects for protein-nucleic acid interactions. - Ling Liu; Yi Xiong 002; Hongyun Gao; Dong-Qing Wei; Julie C. Mitchell; Xiaolei Zhu 001 (Database J. Biol. Databases Curation, 2018)

Predicting kinase inhibitors using bioactivity matrix derived informer sets. - Huikun Zhang; Spencer S. Ericksen; Ching-pei Lee; Gene E. Ananiev; Nathan Wlodarchak; Peng Yu; Julie C. Mitchell; Anthony Gitter; Stephen J. Wright 001; F. Michael Hoffmann; Scott A. Wildman; Michael A. Newton (PLoS Comput. Biol., 2019)

iPNHOT: a knowledge-based approach for identifying protein-nucleic acid interaction hot spots. - Xiaolei Zhu 001; Ling Liu; Jingjing He; Ting Fang; Yi Xiong 002; Julie C. Mitchell (BMC Bioinform., 2020)

Supercomputer-Based Ensemble Docking Drug Discovery Pipeline with Application to Covid-19. - Atanu Acharya; Rupesh Agarwal; Matthew B. Baker; Jérôme Baudry; Debsindhu Bhowmik; Swen Böhm; Kendall G. Byler; Sam Yen-Chi Chen; Leighton Coates; Connor J. Cooper; Omar Demerdash; Isabella Daidone; et al. (J. Chem. Inf. Model., 2020)

OpenMDlr: parallel, open-source tools for general protein structure modeling and refinement from pairwise distances. - Russell B. Davidson; Jess Woods; T. Chad Effler; Mathialakan Thavappiragasam; Julie C. Mitchell; Jerry M. Parks; Ada Sedova (Bioinform., 2022)

Identification of Small-Molecule Inhibitors of Fibroblast Growth Factor 23 Signaling via In Silico Hot Spot Prediction and Molecular Docking to α-Klotho. - Shih-Hsien Liu; Zhousheng Xiao; Sambit K. Mishra; Julie C. Mitchell; Jeremy C. Smith; L. Darryl Quarles; Loukas Petridis (J. Chem. Inf. Model., 2022)