Jerry M. Parks

According to our database, Jerry M. Parks authored at least 9 papers between 2015 and 2025.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2025

Comparative Analysis of TCR and TCR-pMHC Complex Structure Prediction Tools.

Yudan Shi, Jerry M. Parks, Jeremy C. Smith

J. Chem. Inf. Model., 2025

2023

HLA-Clus: HLA class I clustering based on 3D structure.

Yue Shen, Jerry M. Parks, Jeremy C. Smith

BMC Bioinform., December, 2023

Predicted structural proteome of <i>Sphagnum divinum</i> and proteome-scale annotation.

Russell B. Davidson, Mark Coletti, Mu Gao, Bryan Piatkowski, Avinash Sreedasyam, Farhan Quadir, David J. Weston, Jeremy Schmutz, Jianlin Cheng, Jeffrey Skolnick, Jerry M. Parks, Ada Sedova

Bioinform., August, 2023

2022

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

2021

Modeling protein structures from predicted contacts with modern molecular dynamics potentials: accuracy, sensitivity, and refinement.

Russell B. Davidson, Mathialakan Thavappiragasam, T. Chad Effler, Jess Woods, Dwayne A. Elias, Jerry M. Parks, Ada Sedova

Proceedings of the BCB '21: 12th ACM International Conference on Bioinformatics, 2021

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, John D. Eblen, Sally R. Ellingson, Stefano Forli, Jens Glaser, James C. Gumbart, John Gunnels, Oscar R. Hernandez, Stephan Irle, Daniel W. Kneller, Andrey Kovalevsky, Jeffrey M. Larkin, Travis J. Lawrence, Scott LeGrand, Shih-Hsien Liu, Julie C. Mitchell, Gilchan Park, Jerry M. Parks, Anna Pavlova, Loukas Petridis, Duncan Poole, Line Pouchard, Arvind Ramanathan, David M. Rogers, Diogo Santos-Martins, Aaron Scheinberg, Ada Sedova, Yue Shen, Jeremy C. Smith, Micholas Dean Smith, Carlos Soto, Aristides Tsaris, Mathialakan Thavappiragasam, Andreas F. Tillack, Josh Vincent Vermaas, Van Quan Vuong, Junqi Yin, Shinjae Yoo, Mai Zahran, Laura Zanetti Polzi

J. Chem. Inf. Model., 2020

The AQUA-MER databases and aqueous speciation server: A web resource for multiscale modeling of mercury speciation.

Peng Lian, Luanjing Guo, Deepa Devarajan, Jerry M. Parks, Scott L. Painter, Scott C. Brooks, Jeremy C. Smith

J. Comput. Chem., 2020

A Minimal Membrane Metal Transport System: Dynamics and Energetics of mer Proteins.

Hyea Hwang, Anthony Hazel, Peng Lian, Jeremy C. Smith, James C. Gumbart, Jerry M. Parks

J. Comput. Chem., 2020

2015

HackaMol: An Object-Oriented Modern Perl Library for Molecular Hacking on Multiple Scales.

Demian Riccardi, Jerry M. Parks, Alexander Johs, Jeremy C. Smith

J. Chem. Inf. Model., 2015