A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding

Rahmad Akbar, Philippe A. Robert, Milena Pavlović, +12

Cell Reports

In silico proof of principle of machine learning-based antibody design at unconstrained scale

Rahmad Akbar, Philippe A. Robert, Cédric R. Weber, +16

mAbs

EngineeringMachine LearningArtificial Immune SystemImmunologyImmunological Computing +15

The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires

Milena Pavlović, Lonneke Scheffer, Keshav Motwani, +39

Nature Machine Intelligence

immuneSIM: tunable multi-feature simulation of B- and T-cell receptor repertoires for immunoinformatics benchmarking

Cédric R. Weber, Rahmad Akbar, Alexander Yermanos, +5

Bioinformatics

Hopfield Networks is All You Need

Hubert Ramsauer, Bernhard Schäfl, Johannes M. Lehner, +13

arXiv (Cornell University)

Artificial IntelligenceConvolutional Neural NetworkEngineeringMachine LearningNetwork Planning +17

Unconstrained generation of synthetic antibody–antigen structures to guide machine learning methodology for antibody specificity prediction

Philippe A. Robert, Rahmad Akbar, Robert Frank, +22

Nature Computational Science

Artificial IntelligenceSynthetic Antibody–antigen StructuresMachine LearningEngineeringAntibody Specificity Prediction +10

Individualized VDJ recombination predisposes the available Ig sequence space

Andrei Slabodkin, Maria Chernigovskaya, Ivana Mikocziova, +13

Genome Research

GeneticsImmunologyGenetic EpidemiologyGenomicsSequence Design +16

Profiling the baseline performance and limits of machine learning models for adaptive immune receptor repertoire classification

Chakravarthi Kanduri, Milena Pavlović, Lonneke Scheffer, +4

GigaScience

Unconstrained generation of synthetic antibody-antigen structures to guide machine learning methodology for real-world antibody specificity prediction

Philippe A. Robert, Rahmad Akbar, Robert Frank, +22

Artificial IntelligenceEngineeringMachine LearningArtificial Immune SystemImmunology +18

In silico proof of principle of machine learning-based antibody design at unconstrained scale

Rahmad Akbar, Philippe A. Robert, Cédric R. Weber, +16

Feasible Transfer LearningEngineeringMachine LearningArtificial Immune SystemImmunology +16