Publications by authors named "Filip Jagodzinski"

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Energy metric prediction for double insertion mutants via the RoseNet deep learning framework.
Sarah Coffland, Katie Christensen, Brian Hutchinson, Filip Jagodzinski

Bioinform Adv· January 2025

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How pairs of insertion mutations impact protein structure: an exhaustive computational study.
Changrui Li, Yang Zheng, Filip Jagodzinski

Bioinform Adv· September 2024

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Elucidating the Structural Impacts of Protein InDels.
Muneeba Jilani, Alistair Turcan, Nurit Haspel, Filip Jagodzinski

Biomolecules· October 2022

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Domain Analysis and Motif Matcher (DAMM): A Program to Predict Selectivity Determinants in PDZ Domains Using Human PDZ Data.
Haley A Wofford, Josh Myers-Dean, Brandon A Vogel, Kevin Alexander Estrada Alamo, Frederick A Longshore-Neate, Filip Jagodzinski

Molecules· October 2021

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PETRA: Drug Engineering via Rigidity Analysis.
Sam Herr, Josh Myers-Dean, Hunter Read, Filip Jagodzinski

Molecules· March 2020

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MotifAnalyzer-PDZ: A computational program to investigate the evolution of PDZ-binding target specificity.
Jordan Valgardson, Robin Cosbey, Paul Houser, Milo Rupp, Raiden Van Bronkhorst, Filip Jagodzinski

Protein Sci· December 2019

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A systematic exploration of [Formula: see text] cutoff ranges in machine learning models for protein mutation stability prediction.
Richard Olney, Aaron Tuor, Filip Jagodzinski, Brian Hutchinson

J Bioinform Comput Biol· October 2018

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Exploring Protein Cavities through Rigidity Analysis.
Stephanie Mason, Brian Y Chen, Filip Jagodzinski

Molecules· February 2018

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Methods for Detecting Critical Residues in Proteins.
Nurit Haspel, Filip Jagodzinski

Methods Mol Biol· January 2018

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Mutation Sensitivity Maps: Identifying Residue Substitutions That Impact Protein Structure Via a Rigidity Analysis In Silico Mutation Approach.
Michael Siderius, Filip Jagodzinski

J Comput Biol· January 2018

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Predicting the Effect of Single and Multiple Mutations on Protein Structural Stability.
Ramin Dehghanpoor, Evan Ricks, Katie Hursh, Sarah Gunderson, Roshanak Farhoodi, Filip Jagodzinski

Molecules· January 2018

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A conservation and rigidity based method for detecting critical protein residues.
Bahar Akbal-Delibas, Filip Jagodzinski, Nurit Haspel

BMC Struct Biol· November 2014

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Rigidity analysis of protein biological assemblies and periodic crystal structures.
Filip Jagodzinski, Pamela Clark, Jessica Grant, Tiffany Liu, Samantha Monastra

BMC Bioinformatics· May 2014

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Using rigidity analysis to probe mutation-induced structural changes in proteins.
Filip Jagodzinski, Jeanne Hardy, Ileana Streinu

J Bioinform Comput Biol· June 2012

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KINARI-Web: a server for protein rigidity analysis.
Naomi Fox, Filip Jagodzinski, Yang Li, Ileana Streinu

Nucleic Acids Res· July 2011

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