A5033643800- Monoclonal and Polyclonal Antibodies Research
- vaccines and immunoinformatics approaches
- Transgenic Plants and Applications
- Glycosylation and Glycoproteins Research
- Computational Drug Discovery Methods
- Protein purification and stability
- SARS-CoV-2 and COVID-19 Research
- Protein Degradation and Inhibitors
- Viral Infectious Diseases and Gene Expression in Insects
- Advanced Biosensing Techniques and Applications
- CAR-T cell therapy research
- RNA and protein synthesis mechanisms
- Ubiquitin and proteasome pathways
University of Colorado Boulder
2021-2025
University of Colorado System
2024
Immunological interventions, like vaccinations, are enabled by the predictive control of humoral responses to novel antigens. While development trajectories for many broadly neutralizing antibodies (bnAbs) have been measured, it is less established how human subtype-specific develop from their precursors. In this work, we evaluated retrospective eight anti-SARS-CoV-2 Spike (Abs). To mimic immunological process BCR selection during affinity maturation in germinal centers (GCs), performed deep...
Antibodies are engineerable quantities in medicine. Learning antibody molecular recognition would enable the
Antibodies are engineerable quantities in medicine. Learning antibody molecular recognition would enable the silico design of high affinity binders against nearly any proteinaceous surface. Yet, publicly available experiment sequence-binding datasets may not contain mutagenic, antigenic, or sequence diversity necessary for deep learning approaches to capture recognition. In part, this is because limited experimental platforms exist assessing quantitative and simultaneous sequence-function...
Monoclonal antibodies (mAbs) are an important class of therapeutics used to treat cancer, inflammation, and infectious diseases. Identifying highly developable mAb sequences in silico could greatly reduce the time cost required for therapeutic development. Here, we present position-specific scoring matrices (PSSMs) antibody framework mutations developed using baseline human repertoire sequences. Our analysis shows that repertoire-based PSSMs consistent across individuals demonstrate high...
Introduction With the flood of engineered antibodies, there is a heightened need to elucidate structural features antibodies that contribute specificity, stability, and breadth. While antibody flexibility interface angle have begun be explored, design rules yet emerge, as their impact on metrics above remains unclear. Furthermore, purpose framework mutations in mature highly convoluted. Methods To this end, case study utilizing molecular dynamics simulations was undertaken determine VH-VL...
ABSTRACT The engineering of novel protein-ligand binding interactions, particularly for complex drug-like molecules, is an unsolved problem which could enable many practical applications protein biosensors. In this work, we analyzed two engineer ed biosensors, derived from the plant hormone sensor PYR1, to recognize either agrochemical mandipropamid or synthetic cannabinoid WIN55,212-2. Using a combination quantitative deep mutational scanning experiments and molecular dynamics simulations,...
The engineering of novel protein-ligand binding interactions, particularly for complex drug-like molecules, is an unsolved problem, which could enable many practical applications protein biosensors. In this work, we analyzed two engineered biosensors, derived from the plant hormone sensor PYR1, to recognize either agrochemical mandipropamid or synthetic cannabinoid WIN55,212-2. Using a combination quantitative deep mutational scanning experiments and molecular dynamics simulations,...
Abstract Monoclonal antibodies (mAbs) are an important class of therapeutics used to treat cancer, inflammation, and infectious diseases. Identifying highly developable mAb sequences in silico could greatly reduce the time cost required for therapeutic development. Here, we present position-specific scoring matrices (PSSMs) antibody framework mutations developed using natural human repertoire sequences. Our analysis shows that repertoire-based PSSMs consistent across individuals demonstrate...