Publications by authors named "Benjamin Cossins"

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The long-term effect of metabolic bariatric surgery on innate immune cell phenotype and function.
Julia van Tuijl, Debby Vreeken, Wieteke Broeders, Benjamin Cossins, Liesbeth van Emst

Int J Obes (Lond)· December 2025

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Optimizing Absolute Binding Free Energy Calculations for Production Usage.
Zhiyi Wu, Gerhard Konig, Stefan Boresch, Benjamin P Cossins

J Chem Theory Comput· September 2025

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Evaluation of Machine Learning/Molecular Mechanics End-State Corrections with Mechanical Embedding to Calculate Relative Protein-Ligand Binding Free Energies.
Johannes Karwounopoulos, Mateusz Bieniek, Zhiyi Wu, Adam L Baskerville, Gerhard König, Benjamin P Cossins

J Chem Theory Comput· January 2025

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The Effect of Low-Dose Colchicine on the Phenotype and Function of Neutrophils and Monocytes in Patients with Chronic Coronary Artery Disease: A Double-Blind Randomized Placebo-Controlled Cross-Over Study.
Helin Tercan, Amber van Broekhoven, Harsh Bahrar, Tjerk Opstal, Benjamin C Cossins

Clin Pharmacol Ther· November 2024

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Clonal Hematopoiesis Has Prognostic Value in Dilated Cardiomyopathy Independent of Age and Clone Size.
Maurits A Sikking, Sophie L V M Stroeks, Michiel T H M Henkens, Anne G Raafs, Benjamin Cossins

JACC Heart Fail· May 2024

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Tissue-specific transcriptional programming of macrophages controls the microRNA transcriptome targeting multiple functional pathways.
Magdalena A Czubala, Robert H Jenkins, Mark Gurney, Leah Wallace, Benjamin Cossins

J Biol Chem· May 2024

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Benchmarking Active Learning Protocols for Ligand-Binding Affinity Prediction.
Rohan Gorantla, Alžbeta Kubincová, Benjamin Suutari, Benjamin P Cossins, Antonia S J S Mey

J Chem Inf Model· March 2024

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The effect of leptin on trained innate immunity and on systemic inflammation in subjects with obesity.
Daniela Flores Gomez, Siroon Bekkering, Rob Ter Horst, Benjamin Cossins, Inge C L van den Munckhof

J Leukoc Biol· January 2024

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Association Between Clonal Hematopoiesis Driver Mutations, Immune Cell Function, and the Vasculometabolic Complications of Obesity.
Helin Tercan, Benjamin C Cossins, Rosanne C van Deuren, Joost H W Rutten, Leo A B Joosten

J Am Heart Assoc· January 2024

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Sex-specific Association Between Adipose Tissue Inflammation and Vascular and Metabolic Complications of Obesity.
Benjamin C Cossins, Inge van den Munckhof, Joost H W Rutten, Marinette van der Graaf, Rinke Stienstra

J Clin Endocrinol Metab· September 2023

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Th1 Cells Alter the Inflammatory Signature of IL-6 by Channeling STAT Transcription Factors to Alu-like Retroelements.
David Millrine, Ana Cardus Figueras, Javier Uceda Fernandez, Robert Andrews, Barbara Szomolay, Benjamin C Cossins

J Immunol· July 2023

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Peripheral blood mononuclear cell hyperresponsiveness in patients with premature myocardial infarction without traditional risk factors.
Jan-Quinten Mol, Julia van Tuijl, Siroon Bekkering, Charlotte D C C van der Heijden, Sander A J Damen, Benjamin C Cossins

iScience· July 2023

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Deconstructing allostery by computational assessment of the binding determinants of allosteric PTP1B modulators.
Adele Hardie, Benjamin P Cossins, Silvia Lovera, Julien Michel

Commun Chem· June 2023

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Open Binding Pose Metadynamics: An Effective Approach for the Ranking of Protein-Ligand Binding Poses.
Dominykas Lukauskis, Marley L Samways, Simone Aureli, Benjamin P Cossins, Richard D Taylor

J Chem Inf Model· December 2022

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Determination of a microRNA signature of protective kidney ischemic preconditioning originating from proximal tubules.
Usman Khalid, Robert H Jenkins, Robert Andrews, Gilda Pino-Chavez, Benjamin C Cossins

Sci Rep· May 2021

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Membrane Interactions of α-Synuclein Revealed by Multiscale Molecular Dynamics Simulations, Markov State Models, and NMR.
Sarah-Beth T A Amos, Thomas C Schwarz, Jiye Shi, Benjamin P Cossins, Terry S Baker

J Phys Chem B· March 2021

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Combining Machine Learning and Enhanced Sampling Techniques for Efficient and Accurate Calculation of Absolute Binding Free Energies.
Rhys Evans, Ladislav Hovan, Gareth A Tribello, Benjamin P Cossins, Carolina Estarellas

J Chem Theory Comput· July 2020

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Small molecules that inhibit TNF signalling by stabilising an asymmetric form of the trimer.
James O'Connell, John Porter, Boris Kroeplien, Tim Norman, Stephen Rapecki, Benjamin P Cossins

Nat Commun· December 2019

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Activation of naïve CD4 T cells re-tunes STAT1 signaling to deliver unique cytokine responses in memory CD4 T cells.
Jason P Twohig, Ana Cardus Figueras, Robert Andrews, Florian Wiede, Benjamin C Cossins

Nat Immunol· April 2019

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Computational Exploration of Conformational Transitions in Protein Drug Targets.
Benjamin P Cossins, Alastair D G Lawson, Jiye Shi

Methods Mol Biol· January 2019

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Quantifying Secondary Structure Changes in Calmodulin Using 2D-IR Spectroscopy.
Lucy Minnes, Daniel J Shaw, Benjamin P Cossins, Paul M Donaldson, Gregory M Greetham

Anal Chem· October 2017

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Allosteric mechanism of action of the therapeutic anti-IgE antibody omalizumab.
Anna M Davies, Elizabeth G Allan, Anthony H Keeble, Jean Delgado, Benjamin P Cossins

J Biol Chem· June 2017

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Understanding Cryptic Pocket Formation in Protein Targets by Enhanced Sampling Simulations.
Vladimiras Oleinikovas, Giorgio Saladino, Benjamin P Cossins, Francesco L Gervasio

J Am Chem Soc· November 2016

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Thermodynamics calculation of protein-ligand interactions by QM/MM polarizable charge parameters.
Jinan Wang, Qiang Shao, Benjamin P Cossins, Jiye Shi, Kaixian Chen

J Biomol Struct Dyn· October 2016

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Small Molecule Targeting of Protein-Protein Interactions through Allosteric Modulation of Dynamics.
Benjamin P Cossins, Alastair D G Lawson

Molecules· September 2015

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