Author

T. A. Whitehead

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· 4 Bioengineering· 3 Immunology· 2 Evolutionary Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 5 Assay:proteomics· 5 Approach:deep learning· 4 Organism:human· 4 Research Focus:protein folding & dynamics· 4 Research Focus:host-pathogen & immune response· 3 Approach:statistical model· 3 Research Focus:benchmarking· 1

Frequent Co-Authors

P. J. Steiner· 6 shared E. R. Rhodes· 3 shared B. J. Dekosky· 2 shared B. M. Petersen· 2 shared F. Zhao· 2 shared I. M. Francino-Urdaniz· 2 shared L. Peng· 2 shared M. Kirby· 2 shared

Activity by Year

2019-2024 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 25 mutual co-author links

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6 shared papersBiochemistry

P. J. Steiner

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Author profile →

10 papers

Recent·Most cited

An integrated technology for quantitative wide mutational scanning of human antibody Fab libraries

B. M. Petersen, M. Kirby, K. Chrispens, O. Irvin, I. Strawn, C. Haas, A. Walker, Z. T. Baumer, S. Ulmer, E. Ayala, O. Irvin, E. R. Rhodes, J. Guthmiller, P. J. Steiner, T. A. Whitehead

The paper introduces MAGMA-seq, a technology for quantitative analysis of antibody sequence-function relationships, demonstrating its application in mapping antibody development pathways and identifying binding determinants.

Nature Communications · May 10, 2024Peer-reviewedBiochemistry

GMMA can stabilize proteins across different functional constraints

N. Daffern, K. E. Johansson, Z. Baumer, N. Delbert-Robertson, J. Woojuh, M. A. Bedewitz, Z. Davis, I. Wheeldon, S. Cutler, K. A. Lindorff-Larsen, T. A. Whitehead

The paper identifies 5 stabilizing mutations for PYR1 variants using GMMA that increase thermal stability without affecting functionality across different ligand-binding capabilities.

bioRxiv · Jan 30, 2024Biochemistry

Benchmarking cassette-based deep mutagenesis by Golden Gate assembly

N. Daffern, Z. T. Baumer, I. M. Francino-Urdaniz, T. A. Whitehead

The paper benchmarks a Golden Gate method for constructing large, deeply mutagenized protein libraries and demonstrates its scalability and effectiveness.

bioRxiv · Apr 13, 2023 · PreprintBioengineering

A method for generating user-defined circular single-stranded DNA from plasmid DNA using Golden Gate intramolecular ligation

I. K. Strawn, P. J. Steiner, M. S. Newton, T. A. Whitehead

This paper presents a method to generate user-defined circular and linear single-stranded DNA from plasmids using Golden Gate assembly, nickase, and exonuclease, achieving yields of 33-43% for cssDNA and 52% cleavage efficiency for lssDNA.

bioRxiv · Nov 21, 2022Bioengineering

Stabilization of the SARS-CoV-2 Receptor Binding Domain by Protein Core Redesign and Deep Mutational Scanning

A. C. Leonard, J. Weinstein, P. J. Steiner, A. Erbse, S. J. Fleishman, T. A. Whitehead

The paper stabilizes the SARS-CoV-2 RBD using deep mutational scanning and computational design, resulting in a more thermally stable and proteolytically resistant variant.

Protein Engineering, Design and Selection · Mar 24, 2022Peer-reviewedBiochemistry

Engineering SARS-CoV-2 neutralizing antibodies for increased potency and reduced viral escape

F. Zhao, C. Keating, G. Ozorowski, N. Shaabani, I. M. Francino-Urdaniz, S. Barman, O. Limbo, A. Burns, P. Zhou, M. Ricciardi, J. Woehl, Q. Tran, H. L. Turner, L. Peng, D. Huang, , J. G. Jardine

This study engineers SARS-CoV-2 neutralizing antibodies through directed evolution to enhance their potency and reduce viral escape.

bioRxiv · Jan 6, 2022 · PreprintBioengineering

Regulatory approved monoclonal antibodies contain framework mutations predicted from human antibody repertoires

B. M. Petersen, S. A. Ulmer, E. R. Rhodes, M. F. Gutierrez Gonzalez, B. J. Dekosky, K. G. Sprenger, T. A. Whitehead

The paper predicts framework mutations in therapeutic monoclonal antibodies using natural human antibody repertoires, showing potential to improve antibody properties and reduce immunogenicity.

bioRxiv · Jun 22, 2021Immunology

One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening

I. Francino Urdaniz, P. J. Steiner, M. Kirby, F. Zhao, C. M. Haas, S. Barman, E. R. Rhodes, L. Peng, K. Sprenger, J. Jardine, T. A. Whitehead

The paper presents a method to identify SARS-CoV-2 Spike RBD escape mutants using yeast screening and provides associated resources.

bioRxiv · Mar 15, 2021Biochemistry

Paired heavy and light chain signatures contribute to potent SARS-CoV-2 neutralization in public antibody responses

B. B. Banach, G. Cerutti, A. S. Fahad, C.-H. Shen, M. Oliveira de Souza, P. S. Katsamba, Y. Tsybovsky, P. Wang, M. S. Nair, Y. Huang, I. M. Francino Urdaniz, P. J. Steiner, M. Gutierrez-Gonzalez, L. Liu, S. N. Lopez Acevedo, , B. J. DeKosky

This study identifies a public antibody class, IGHV3-53/3-66, with potent SARS-CoV-2 neutralization capabilities through paired heavy and light chain interactions.

bioRxiv · Dec 31, 2020Immunology

Impact of in vivo protein folding probability on local fitness landscapes

M. S. Faber, E. E. Wrenbeck, L. R. Azouz, P. J. Steiner, T. A. Whitehead

This study investigates how in vivo protein folding probability affects local fitness landscapes using deep mutational scanning of amidase variants.

bioRxiv · Jun 4, 2019Evolutionary Biology