Publications by authors named "Joseph McCarthy"

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Modeling Protein-Protein and Protein-Ligand Interactions by the ClusPro Team in CASP16.
Ryota Ashizawa, Sergei Kotelnikov, Omeir Khan, Stan Xiaogang Li, Ernest Glukhov, Diane Joseph-McCarthy

Proteins· January 2026

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The Influence of Ligands on AlphaFold3 Prediction of Cryptic Pockets.
Maria Lazou, Felix Tuchscherer, Sandor Vajda, Diane Joseph-McCarthy

bioRxiv· January 2026

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Investigation of Peptide Binding to Fibrin for the Design of Targeted Molecular Imaging Agents.
Nicole Ostrovsky, Alisha Ragatz, Joyce Y Wong, Diane Joseph-McCarthy

Langmuir· December 2025

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Improving B-cell epitope prediction.
Hao Yu, Diane Joseph-McCarthy, Sandor Vajda

Drug Discov Today· November 2025

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On a model-based approach to improve intranasal spray targeting for respiratory viral infections.
Mohammad Mehedi Hasan Akash, Yueying Lao, Pallavi A Balivada, Phoebe Ato, Nogaye K Ka, Diane Joseph-McCarthy

Front Drug Deliv· September 2025

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Impact of Protein Conformational Diversity on Structure-Based Prediction of Druggability.
Ayse A Bekar-Cesaretli, Shray Vats, Adrian Whitty, Dima Kozakov, Diane Joseph-McCarthy

J Chem Inf Model· September 2025

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E-FTMap: A Protein Structure Based Pharmacophore Identification Server for Guiding Fragment Expansion.
Omeir Khan, George Jones, Dima Kozakov, Dmitri Beglov, Diane Joseph-McCarthy

J Mol Biol· August 2025

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Oncogenic drivers shape the tumor microenvironment in human gliomas.
Bo Zhao, Chae Yun Cho, Lingqun Ye, Tula Keal, Thomas Mitchell, Joseph H McCarthy

bioRxiv· May 2025

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Which cryptic sites are feasible drug targets?
Maria Lazou, Dima Kozakov, Diane Joseph-McCarthy, Sandor Vajda

Drug Discov Today· November 2024

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Predicting multiple conformations of ligand binding sites in proteins suggests that AlphaFold2 may remember too much.
Maria Lazou, Omeir Khan, Thu Nguyen, Dzmitry Padhorny, Dima Kozakov, Diane Joseph-McCarthy

Proc Natl Acad Sci U S A· November 2024

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Identification and Ranking of Binding Sites from Structural Ensembles: Application to SARS-CoV-2.
Maria Lazou, Ayse A Bekar-Cesaretli, Sandor Vajda, Diane Joseph-McCarthy

Viruses· October 2024

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Automating biomedical literature review for rapid drug discovery: Leveraging GPT-4 to expedite pandemic response.
Jingmei Yang, Kenji C Walker, Ayse A Bekar-Cesaretli, Boran Hao, Nahid Bhadelia, Diane Joseph-McCarthy

Int J Med Inform· September 2024

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Expanding FTMap for Fragment-Based Identification of Pharmacophore Regions in Ligand Binding Sites.
Omeir Khan, George Jones, Maria Lazou, Diane Joseph-McCarthy, Dima Kozakov

J Chem Inf Model· March 2024

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Conservation of Hot Spots and Ligand Binding Sites in Protein Models by AlphaFold2.
Ayse A Bekar-Cesaretli, Omeir Khan, Thu Nguyen, Dima Kozakov, Diane Joseph-Mccarthy

J Chem Inf Model· February 2024

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Computational identification of antibody-binding epitopes from mimotope datasets.
Rang Li, Sabrina Wilderotter, Madison Stoddard, Debra Van Egeren, Arijit Chakravarty, Diane Joseph-McCarthy

Front Bioinform· February 2024

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Identification of a druggable site on GRP78 at the GRP78-SARS-CoV-2 interface and virtual screening of compounds to disrupt that interface.
Maria Lazou, Jonathan R Hutton, Arijit Chakravarty, Diane Joseph-McCarthy

J Comput Aided Mol Des· January 2024

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Guided, motor, and mental imagery adjuncts to teaching central venous access.
Sydney Cryder, Stephen Jensen, Joseph McCarthy, Kristen Whitworth, Gabrielle E Kennelley

AEM Educ Train· April 2023

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Vaccines Alone Cannot Slow the Evolution of SARS-CoV-2.
Debra Van Egeren, Madison Stoddard, Laura F White, Natasha S Hochberg, Michael S Rogers, Diane Joseph-McCarthy

Vaccines (Basel)· April 2023

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Machine learning for the identification of respiratory viral attachment machinery from sequences data.
Kenji C Walker, Maïa Shwarts, Stepan Demidikin, Arijit Chakravarty, Diane Joseph-McCarthy

PLoS One· March 2023

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A Synergistic Approach to Atmospheric Water Scavenging.
Shichao Jiao, Joseph J McCarthy

ACS Appl Mater Interfaces· February 2023

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Influence of Soldiers on Exploratory Foraging Behavior in the Formosan Subterranean Termite, (Blattodea: Rhinotermitidae).
Joseph McCarthy, Arjun Khadka, Hasim Hakanoglu, Qian Sun

Insects· February 2023

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Simultaneous Le Fort III and Le Fort I Osteotomy: Surgical Outcomes and Clinical Parameters.
Olivia Y Yue, Aneesh Kalra, Bradley S Eisemann, Barry H Grayson, Joseph G McCarthy

J Craniofac Surg· January 2023

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No magic bullet: Limiting in-school transmission in the face of variable SARS-CoV-2 viral loads.
Debra Van Egeren, Madison Stoddard, Abir Malakar, Debayan Ghosh, Antu Acharya, Diane Joseph-McCarthy

Front Public Health· December 2022

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Rapid relaxation of pandemic restrictions after vaccine rollout favors growth of SARS-CoV-2 variants: A model-based analysis.
Debra Van Egeren, Madison Stoddard, Alexander Novokhodko, Michael S Rogers, Diane Joseph-McCarthy

PLoS One· December 2021

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Controlling long-term SARS-CoV-2 infections can slow viral evolution and reduce the risk of treatment failure.
Debra Van Egeren, Alexander Novokhodko, Madison Stoddard, Uyen Tran, Bruce Zetter, Diane Joseph-McCarthy

Sci Rep· November 2021

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