Biological AI Foundation Models Automating Core Expertise
#1AlphaFold 3 (DeepMind, 2024) extended protein structure prediction to nucleic acids, small molecules, and complexes, achieving structural prediction accuracy competitive with cryo-EM for many targets. ESM3 (EvolutionaryScale) is a 98-billion-parameter model that reasons over protein sequence, structure, and function simultaneously, enabling generative protein design from text prompts. Evo (Arc Institute, 2024) is a foundation model trained on 2.7 million prokaryotic and phage genomes that can perform zero-shot functional prediction, generative sequence design, and variant effect prediction across entire genomic sequences — tasks that previously required teams of computational biologists and months of work now execute in minutes via API.