Engineering immunity with quantitative tools
Guest Editors Chris Jewell and Jeff Gray introduce this themed collection of papers showcasing the latest research that leverages quantitative tools and technologies to decipher and control immune function.
Augmenting adaptive immunity: progress and challenges in the quantitative engineering and analysis of adaptive immune receptor repertoires
The adaptive immune system is a natural diagnostic sensor and therapeutic.
Functional genomics in cancer immunotherapy: computational approaches for biomarker and drug discovery
A hitchhiker's guide to biomarker discovery in immune checkpoint blockade.
Antibody–antigen complex modelling in the era of immunoglobulin repertoire sequencing
This review describes a pipeline to find antigen binders in large immunoglobulin gene sequencing datasets via high-throughput antibody–antigen complex modelling.
Paper
Functional clustering of B cell receptors using sequence and structural features
We describe a method for clustering BCRs based on sequence and predicted structural features in order to identify groups with similar antigen and epitope binding specificity.
Paper
Repertoire Builder: high-throughput structural modeling of B and T cell receptors
Repertoire Builder (https://sysimm.org/rep_builder/) is a method for generating atomic-resolution, three-dimensional models of B cell receptors (BCRs) or T cell receptors (TCRs) from their amino acid sequences.
Paper
Learning-accelerated discovery of immune-tumour interactions
An integrated computational framework utilizing PhysiCell and EMEWS for design-space identification and feature optimization of tumour immunotherapy.
Role of antibody heavy and light chain interface residues in affinity maturation of binding to HIV envelope glycoprotein
Optimization of the heavy chain/light chain interface could serve as an important tool for maximizing antibody/antigen binding affinity without altering antigen contact residues.
About this collection
From MSDE
Guest Editors: Professor Christopher M. Jewell (University of Maryland, College Park) and Professor Jeffrey J. Gray (Johns Hopkins University)
This collection of papers highlights research on computational, simulation, and modelling tools to study fundamental immunological phenomena, to design precision immunological interactions, or to test vaccines and immunotherapies.