Author

J. L. McWhirter

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biochemistry· 1 Bioengineering· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Research Focus:protein design· 2 Approach:graph neural network· 1 Research Focus:protein folding & dynamics· 1 Assay:protein sequence· 1 Assay:protein structure· 1 Research Focus:protein structure prediction· 1 Research Focus:sequence-to-function modeling· 1

Frequent Co-Authors

A. Mukhopadhyay· 2 shared A. Kadan· 1 shared B. McMaster· 1 shared G. Lakatos· 1 shared P. Farber· 1 shared S. B. Dixit· 1 shared S. Dixit· 1 shared

Activity by Year

2023-2023 · peak 2/yr

Co-Author Collaboration Network

7 top collaborators · 12 mutual co-author links

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2 shared papersBiochemistry

A. Mukhopadhyay

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2 papers

Recent·Most cited

BiochemistrybioRxivPreprintMay 5, 2023

ZymePackNet: rotamer-sampling free graph neural network method for protein sidechain prediction

A. Mukhopadhyay, A. Kadan, B. McMaster…·S. B. Dixit

ZymePackNet predicts protein sidechain conformations using a graph neural network without requiring rotamer libraries or energy functions, achieving high accuracy in dihedral angle prediction.

DOI 10.1101/2023.05.05.539648

protein structuredeep learning

𝕏 PostBluesky

BioengineeringbioRxivPreprintApr 12, 2023

Automated Protein Affinity Optimization using a 1D-CNN Deep Learning Model

J. L. McWhirter, A. Mukhopadhyay, P. Farber…·S. Dixit

This paper introduces ZymeSwapNet, a 1D-CNN model for protein sequence prediction that optimizes design objectives like stability and binding specificity in antibody domains.

DOI 10.1101/2023.04.12.536512

protein sequencedeep learning

𝕏 PostBluesky