Adaptive immune receptor repertoire analysis
B cell and T cell receptor repertoires compose the adaptive immune receptor repertoire
(AIRR) of an individual. The AIRR is a unique collection of antigen-specific receptors that …
(AIRR) of an individual. The AIRR is a unique collection of antigen-specific receptors that …
AI models for protein design are driving antibody engineering
MF Chungyoun, JJ Gray - Current Opinion in Biomedical Engineering, 2023 - Elsevier
Therapeutic antibody engineering seeks to identify antibody sequences with specific binding
to a target and optimized drug-like properties. When guided by deep learning, antibody …
to a target and optimized drug-like properties. When guided by deep learning, antibody …
Pre-training Antibody Language Models for Antigen-Specific Computational Antibody Design
Antibodies are proteins that effectively protect the human body by binding to pathogens.
Recently, deep learning-based computational antibody design has attracted popular …
Recently, deep learning-based computational antibody design has attracted popular …
Incorporating pre-training paradigm for antibody sequence-structure Co-design
Antibodies are versatile proteins that can bind to pathogens and provide effective protection
for human body. Recently, deep learning-based computational antibody design has …
for human body. Recently, deep learning-based computational antibody design has …
Reading the repertoire: Progress in adaptive immune receptor analysis using machine learning
The adaptive immune system holds invaluable information on past and present immune
responses in the form of B and T cell receptor sequences, but we are limited in our ability to …
responses in the form of B and T cell receptor sequences, but we are limited in our ability to …
Weakly supervised identification and generation of adaptive immune receptor sequences associated with immune disease status
Adaptive immune receptor (AIR) repertoires carry immune signals as sequence motif
imprints of past and present encounters with antigen (immune status). Machine learning …
imprints of past and present encounters with antigen (immune status). Machine learning …
Biophysical cartography of the native and human-engineered antibody landscapes quantifies the plasticity of antibody developability
Designing effective monoclonal antibody (mAb) therapeutics face a significant challenge
known as" developability", which reflects an antibody's ability to progress through …
known as" developability", which reflects an antibody's ability to progress through …
AbGraftBERT: Enhancing Antibody Design through Self-Grafting and Amino Acid-based Perturbation of Pre-trained Language Models
Recent advancements in sequence-structure co-design have demonstrated the efficacy of
integrating pre-trained language models (PLMs) with Graph Neural Network (GNN)-based …
integrating pre-trained language models (PLMs) with Graph Neural Network (GNN)-based …
Ibex: Variational autoencoder for single-cell BCR sequencing
B cells are critical for adaptive immunity and are governed by the recognition of an antigen
by the B cell receptor (BCR), a process that drives a coordinated series of signaling events …
by the B cell receptor (BCR), a process that drives a coordinated series of signaling events …