Publications by authors named "Matthew D McCoy"

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PEGASUS: Unlocking Polarity in Cell-Permeable Cyclic Peptides Using AI Models Built on Massively Parallel Biological Assays.
Cole Baker, Francis A Acquah, Lakshmi G Chivukula, Liping Wu, Laurence Philippe-Venec, Matthew D McCoy

J Med Chem· December 2025

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Probability Distribution for Rare Neutral Mutations in Cancers and Application to Dynamic Precision Medicine of Cancer.
Wei He, Matthew D McCoy, Chen-Hsiang Yeang, Rebecca B Riggins, Robert A Beckman

bioRxiv· October 2025

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Personalized cancer treatment strategies incorporating irreversible and reversible drug resistance mechanisms.
Wei He, Matthew D McCoy, Rebecca B Riggins, Robert A Beckman, Chen-Hsiang Yeang

NPJ Syst Biol Appl· July 2025

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A Proof-of-Concept Clinical Trial Design for Evolutionary Guided Precision Medicine for Cancer.
Deepak Parashar, Wei He, Peter Mon, Martyn Plummer, Matthew D McCoy

medRxiv· May 2025

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Novel endoscopic approach for treatment of malignant tracheoesophageal fistula (TEF): A case report.
Haris Zia, Matthew D McCoy, Jamie Sturgill, Walid Hadid, Ashish P Maskey

Respir Med Case Rep· September 2024

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Unraveling Vulnerabilities in Endocrine Therapy-Resistant HER2+/ER+ Breast Cancer.
Shaymaa Bahnassy, Hillary Stires, Lu Jin, Stanley Tam, Dua Mobin, Matthew D McCoy

Endocrinology· November 2023

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Understanding the need for digital twins' data in patient advocacy and forecasting oncology.
Hung-Ching Chang, Antony M Gitau, Siri Kothapalli, Danny R Welch, Mihaela E Sardiu, Matthew D McCoy

Front Artif Intell· November 2023

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Unraveling Vulnerabilities in Endocrine Therapy-Resistant HER2+/ER+ Breast Cancer.
Shaymaa Bahnassy, Hillary Stires, Lu Jin, Stanley Tam, Dua Mobin, Matthew D McCoy

bioRxiv· August 2023

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Understanding Calmodulin Variants Affecting Calcium-Dependent Inactivation of L-Type Calcium Channels through Whole-Cell Simulation of the Cardiac Ventricular Myocyte.
Matthew D McCoy, Aman Ullah, W Jonathan Lederer, M Saleet Jafri

Biomolecules· December 2022

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Exploring approaches for predictive cancer patient digital twins: Opportunities for collaboration and innovation.
Eric A Stahlberg, Mohamed Abdel-Rahman, Boris Aguilar, Alireza Asadpoure, Robert A Beckman, Matthew D McCoy

Front Digit Health· October 2022

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The RNA-Binding Protein HuR Posttranscriptionally Regulates the Protumorigenic Activator YAP1 in Pancreatic Ductal Adenocarcinoma.
Samantha Z Brown, Grace A McCarthy, James R Carroll, Roberto Di Niro, Carl Pelz, Matthew D McCoy

Mol Cell Biol· July 2022

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Machine learning-based prediction of drug and ligand binding in BCL-2 variants through molecular dynamics.
John R Hamre, Dmitri K Klimov, Matthew D McCoy, M Saleet Jafri

Comput Biol Med· January 2022

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The FDA-Approved Anthelmintic Pyrvinium Pamoate Inhibits Pancreatic Cancer Cells in Nutrient-Depleted Conditions by Targeting the Mitochondria.
Christopher W Schultz, Grace A McCarthy, Teena Nerwal, Avinoam Nevler, James B DuHadaway, Matthew D McCoy

Mol Cancer Ther· November 2021

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Predicting Genetic Variation Severity Using Machine Learning to Interpret Molecular Simulations.
Matthew D McCoy, John Hamre, Dmitri K Klimov, M Saleet Jafri

Biophys J· October 2021

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Cadherin 11 Promotes Immunosuppression and Extracellular Matrix Deposition to Support Growth of Pancreatic Tumors and Resistance to Gemcitabine in Mice.
Ivana Peran, Sivanesan Dakshanamurthy, Matthew D McCoy, Anastasia Mavropoulos, Bedilu Allo

Gastroenterology· March 2021

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Predicting Genetic Variation Severity Using Machine Learning to Interpret Molecular Simulations.
Matthew D McCoy, John Hamre, Dmitri K Klimov, M Saleet Jafri

Biophys J· January 2021

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Envisioning the future of precision oncology trials.
Subha Madhavan, Robert A Beckman, Matthew D McCoy, Michael J Pishvaian, Jonathan R Brody

Nat Cancer· January 2021

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SNP2SIM: a modular workflow for standardizing molecular simulation and functional analysis of protein variants.
Matthew D McCoy, Vikram Shivakumar, Sridhar Nimmagadda, Mohsin Saleet Jafri, Subha Madhavan

BMC Bioinformatics· April 2019

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Curation of the Pancreatic Ductal Adenocarcinoma Subset of the Cancer Genome Atlas Is Essential for Accurate Conclusions about Survival-Related Molecular Mechanisms.
Ivana Peran, Subha Madhavan, Stephen W Byers, Matthew D McCoy

Clin Cancer Res· August 2018

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A Computational Approach for Prioritizing Selection of Therapies Targeting Drug Resistant Variation in Anaplastic Lymphoma Kinase.
Matthew D McCoy, Subha Madhavan

AMIA Jt Summits Transl Sci Proc· May 2018

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