T. A. Whitehead

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

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.

Rationalizing diverse binding mechanisms to the same protein fold: in-sights for ligand recognition and biosensor design

This study analyzes two engineered biosensors based on PYR1 to recognize different ligands, revealing binding mechanisms and computational methods for biosensor design.

GMMA can stabilize proteins across different functional constraints

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

Benchmarking cassette-based deep mutagenesis by Golden Gate assembly

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

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

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.

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

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

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

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.

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

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

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

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

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

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.

Impact of in vivo protein folding probability on local fitness landscapes

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