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Fabiola E. Medina, Juana Coloma, Claudia Oviedo

Marian Vincenzi, Flavia Anna Mercurio, Ida Autiero, Marilisa Leone

L. América Chi, Jonathan E. Barnes, Jagdish Suresh Patel, F. Marty Ytreberg

Aliaa E Ali, Li-Li Li, Michael J Courtney, Olli T Pentikäinen, Pekka A Postila

Brent Brown, Chinua Imarogbe, Enrique Chacon-Cruz, Ingo Fricke

Marian Vincenzi, Flavia Anna Mercurio, Sara La Manna, Rosanna Palumbo, Luciano Pirone, Daniela Marasco, Emilia Maria Pedone, Marilisa Leone

Nicholas G. M. Wells, Colin A. Smith

Yesol Sapozhnikov, Jagdish Suresh Patel, F. Marty Ytreberg, Craig R. Miller

Vamseedhar Rayaprolu, Benjamin O. Fulton, Ashique Rafique, Emilia Arturo, Dewight Williams, Chitra Hariharan, Heather Callaway, Amar Parvate, Sharon L. Schendel, Diptiben Parekh, Sean Hui, Kelly Shaffer, Kristen E. Pascal, Elzbieta Wloga, Stephanie Giordano, Nicole Negron, Min Ni, Richard Copin, Gurinder S. Atwal, Matthew Franklin, Ruth Mabel Boytz, Callie Donahue, Robert Davey, Alina Baum, Christos A. Kyratsous, Erica Ollmann Saphire

C. Brandon Ogbunugafor

Sierra S. Beach, McKenna A. Hull, F. Marty Ytreberg, Jagdish Suresh Patel, Tanya A. Miura

Irina Tiper, Moussa Kourout, Bryan Lanning, Carolyn Fisher, Krishnamurthy Konduru, Anjan Purkayastha, Gerardo Kaplan, Robert Duncan

Shunji Li, Jagdish Suresh Patel, Jordan Yang, Angela Marie Crabtree, Brenda Marilyn Rubenstein, Peik Karl Lund-Andersen, Frederick Marty Ytreberg, Paul Andrew Rowley

Jonathan E. Barnes, Peik K. Lund-Andersen, Jagdish Suresh Patel, F. Marty Ytreberg

Dharmeshkumar Patel, Jagdish Suresh Patel, F. Marty Ytreberg

Rishikesh Magar, Prakarsh Yadav, Amir Barati Farimani

Kristen A. Johnson, Nisha Bhattarai, Melissa R. Budicini, Carolyn M. LaBonia, Sarah Catherine B. Baker, Bernard S. Gerstman, Prem P. Chapagain, Robert V. Stahelin

Jannell V. Bazurto, Dipti D. Nayak, Tomislav Ticak, Milya Davlieva, Jessica A. Lee, Chandler N. Hellenbrand, Leah B. Lambert, Olivia J. Benski, Caleb J. Quates, Jill L. Johnson, Jagdish Suresh Patel, F. Marty Ytreberg, Yousif Shamoo, Christopher J. Marx

Christopher A. Mirabzadeh, F. Marty Ytreberg

Jordan Yang, Nandita Naik, Jagdish Suresh Patel, Christopher S. Wylie, Wenze Gu, Jessie Huang, F. Marty Ytreberg, Mandar T. Naik, Daniel M. Weinreich, Brenda M. Rubenstein

Tawny R. Gonzalez, Kyle P. Martin, Jonathan E. Barnes, Jagdish Suresh Patel, F. Marty Ytreberg

Nicholas Di Paola, Mariano Sanchez-Lockhart, Xiankun Zeng, Jens H. Kuhn, Gustavo Palacios

Michael K. Lo, César G. Albariño, Jason K. Perry, Silvia Chang, Egor P. Tchesnokov, Lisa Guerrero, Ayan Chakrabarti, Punya Shrivastava-Ranjan, Payel Chatterjee, Laura K. McMullan, Ross Martin, Robert Jordan, Matthias Götte, Joel M. Montgomery, Stuart T. Nichol, Mike Flint, Danielle Porter, Christina F. Spiropoulou

Jagdish Suresh Patel, Caleb J. Quates, Erin L. Johnson, F. Marty Ytreberg

Jagdish Suresh Patel, F. Marty Ytreberg

Ami Patel, Daniel H. Park, Carl W. Davis, Trevor R.F. Smith, Anders Leung, Kevin Tierney, Aubrey Bryan, Edgar Davidson, Xiaoying Yu, Trina Racine, Charles Reed, Marguerite E. Gorman, Megan C. Wise, Sarah T.C. Elliott, Rianne Esquivel, Jian Yan, Jing Chen, Kar Muthumani, Benjamin J. Doranz, Erica Ollmann Saphire, James E. Crowe, Kate E. Broderick, Gary P. Kobinger, Shihua He, Xiangguo Qiu, Darwyn Kobasa, Laurent Humeau, Niranjan Y. Sardesai, Rafi Ahmed, David B. Weiner

Andrea González-González, Shaun M. Hug, Alejandra Rodríguez-Verdugo, Jagdish Suresh Patel, Brandon S. Gaut

2025	Theoretical conformational analysis of cross-linking bonds in fungal hydrophobin from Aspergillus fumigatus Journal of Biomolecular Structure and Dynamics Fabiola E. Medina, Juana Coloma, Claudia Oviedo
2025	Sam-Sam Association Between EphA2 and SASH1: In Silico Studies of Cancer-Linked Mutations Molecules Marian Vincenzi, Flavia Anna Mercurio, Ida Autiero, Marilisa Leone
2024	Exploring the ability of the MD+FoldX method to predict SARS-CoV-2 antibody escape mutations using large-scale data Scientific Reports L. América Chi, Jonathan E. Barnes, Jagdish Suresh Patel, F. Marty Ytreberg
2024	Atomistic simulations reveal impacts of missense mutations on the structure and function of SynGAP1 Briefings in Bioinformatics Aliaa E Ali, Li-Li Li, Michael J Courtney, Olli T Pentikäinen, Pekka A Postila
2024	Filoviridae: insights into immune responses to Ebola virus Exploration of Immunology Brent Brown, Chinua Imarogbe, Enrique Chacon-Cruz, Ingo Fricke
2024	Exploring a Potential Optimization Route for Peptide Ligands of the Sam Domain from the Lipid Phosphatase Ship2 International Journal of Molecular Sciences Marian Vincenzi, Flavia Anna Mercurio, Sara La Manna, Rosanna Palumbo, Luciano Pirone, Daniela Marasco, Emilia Maria Pedone, Marilisa Leone
2023	Predicting binding affinity changes from long‐distance mutations using molecular dynamics simulations and Rosetta Proteins: Structure, Function, and Bioinformatics Nicholas G. M. Wells, Colin A. Smith
2023	Statistical modeling to quantify the uncertainty of FoldX-predicted protein folding and binding stability BMC Bioinformatics Yesol Sapozhnikov, Jagdish Suresh Patel, F. Marty Ytreberg, Craig R. Miller
2023	Structure of the Inmazeb cocktail and resistance to Ebola virus escape Cell Host & Microbe Vamseedhar Rayaprolu, Benjamin O. Fulton, Ashique Rafique, Emilia Arturo, Dewight Williams, Chitra Hariharan, Heather Callaway, Amar Parvate, Sharon L. Schendel, Diptiben Parekh, Sean Hui, Kelly Shaffer, Kristen E. Pascal, Elzbieta Wloga, Stephanie Giordano, Nicole Negron, Min Ni, Richard Copin, Gurinder S. Atwal, Matthew Franklin, Ruth Mabel Boytz, Callie Donahue, Robert Davey, Alina Baum, Christos A. Kyratsous, Erica Ollmann Saphire
2022	The mutation effect reaction norm (mu‐rn) highlights environmentally dependent mutation effects and epistatic interactions Evolution C. Brandon Ogbunugafor
2022	Molecular Modeling Predicts Novel Antibody Escape Mutations in the Respiratory Syncytial Virus Fusion Glycoprotein Journal of Virology Sierra S. Beach, McKenna A. Hull, F. Marty Ytreberg, Jagdish Suresh Patel, Tanya A. Miura
2022	Tracking ebolavirus genomic drift with a resequencing microarray PLOS ONE Irina Tiper, Moussa Kourout, Bryan Lanning, Carolyn Fisher, Krishnamurthy Konduru, Anjan Purkayastha, Gerardo Kaplan, Robert Duncan
2022	Defining the HIV Capsid Binding Site of Nucleoporin 153 mSphere Shunji Li, Jagdish Suresh Patel, Jordan Yang, Angela Marie Crabtree, Brenda Marilyn Rubenstein, Peik Karl Lund-Andersen, Frederick Marty Ytreberg, Paul Andrew Rowley
2022	The effect of mutations on binding interactions between the SARS-CoV-2 receptor binding domain and neutralizing antibodies B38 and CB6 Scientific Reports Jonathan E. Barnes, Peik K. Lund-Andersen, Jagdish Suresh Patel, F. Marty Ytreberg
2021	Implementing and Assessing an Alchemical Method for Calculating Protein–Protein Binding Free Energy Journal of Chemical Theory and Computation Dharmeshkumar Patel, Jagdish Suresh Patel, F. Marty Ytreberg
2021	Potential neutralizing antibodies discovered for novel corona virus using machine learning Scientific Reports Rishikesh Magar, Prakarsh Yadav, Amir Barati Farimani
2021	Cysteine Mutations in the Ebolavirus Matrix Protein VP40 Promote Phosphatidylserine Binding by Increasing the Flexibility of a Lipid-Binding Loop Viruses Kristen A. Johnson, Nisha Bhattarai, Melissa R. Budicini, Carolyn M. LaBonia, Sarah Catherine B. Baker, Bernard S. Gerstman, Prem P. Chapagain, Robert V. Stahelin
2021	EfgA is a conserved formaldehyde sensor that leads to bacterial growth arrest in response to elevated formaldehyde PLOS Biology Jannell V. Bazurto, Dipti D. Nayak, Tomislav Ticak, Milya Davlieva, Jessica A. Lee, Chandler N. Hellenbrand, Leah B. Lambert, Olivia J. Benski, Caleb J. Quates, Jill L. Johnson, Jagdish Suresh Patel, F. Marty Ytreberg, Yousif Shamoo, Christopher J. Marx
2020	Implementation of adaptive integration method for free energy calculations in molecular systems PeerJ Computer Science Christopher A. Mirabzadeh, F. Marty Ytreberg
2020	Predicting the viability of beta-lactamase: How folding and binding free energies correlate with beta-lactamase fitness PLOS ONE Jordan Yang, Nandita Naik, Jagdish Suresh Patel, Christopher S. Wylie, Wenze Gu, Jessie Huang, F. Marty Ytreberg, Mandar T. Naik, Daniel M. Weinreich, Brenda M. Rubenstein
2020	Assessment of software methods for estimating protein-protein relative binding affinities PLOS ONE Tawny R. Gonzalez, Kyle P. Martin, Jonathan E. Barnes, Jagdish Suresh Patel, F. Marty Ytreberg
2020	Viral genomics in Ebola virus research Nature Reviews Microbiology Nicholas Di Paola, Mariano Sanchez-Lockhart, Xiankun Zeng, Jens H. Kuhn, Gustavo Palacios
2020	Remdesivir targets a structurally analogous region of the Ebola virus and SARS-CoV-2 polymerases Proceedings of the National Academy of Sciences Michael K. Lo, César G. Albariño, Jason K. Perry, Silvia Chang, Egor P. Tchesnokov, Lisa Guerrero, Ayan Chakrabarti, Punya Shrivastava-Ranjan, Payel Chatterjee, Laura K. McMullan, Ross Martin, Robert Jordan, Matthias Götte, Joel M. Montgomery, Stuart T. Nichol, Mike Flint, Danielle Porter, Christina F. Spiropoulou
2019	Expanding the watch list for potential Ebola virus antibody escape mutations PLOS ONE Jagdish Suresh Patel, Caleb J. Quates, Erin L. Johnson, F. Marty Ytreberg
2018	Fast Calculation of Protein–Protein Binding Free Energies Using Umbrella Sampling with a Coarse-Grained Model Journal of Chemical Theory and Computation Jagdish Suresh Patel, F. Marty Ytreberg
2018	In Vivo Delivery of Synthetic Human DNA-Encoded Monoclonal Antibodies Protect against Ebolavirus Infection in a Mouse Model Cell Reports Ami Patel, Daniel H. Park, Carl W. Davis, Trevor R.F. Smith, Anders Leung, Kevin Tierney, Aubrey Bryan, Edgar Davidson, Xiaoying Yu, Trina Racine, Charles Reed, Marguerite E. Gorman, Megan C. Wise, Sarah T.C. Elliott, Rianne Esquivel, Jian Yan, Jing Chen, Kar Muthumani, Benjamin J. Doranz, Erica Ollmann Saphire, James E. Crowe, Kate E. Broderick, Gary P. Kobinger, Shihua He, Xiangguo Qiu, Darwyn Kobasa, Laurent Humeau, Niranjan Y. Sardesai, Rafi Ahmed, David B. Weiner
2017	Adaptive Mutations in RNA Polymerase and the Transcriptional Terminator Rho Have Similar Effects on Escherichia coli Gene Expression Molecular Biology and Evolution Andrea González-González, Shaun M. Hug, Alejandra Rodríguez-Verdugo, Jagdish Suresh Patel, Brandon S. Gaut
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