The causes of evolvability and their evolution
Evolvability is the ability of a biological system to produce phenotypic variation that is both
heritable and adaptive. It has long been the subject of anecdotal observations and …
heritable and adaptive. It has long been the subject of anecdotal observations and …
Evolutionary pathways and trajectories in antibiotic resistance
Evolution is the hallmark of life. Descriptions of the evolution of microorganisms have
provided a wealth of information, but knowledge regarding “what happened” has precluded …
provided a wealth of information, but knowledge regarding “what happened” has precluded …
Language models enable zero-shot prediction of the effects of mutations on protein function
Modeling the effect of sequence variation on function is a fundamental problem for
understanding and designing proteins. Since evolution encodes information about function …
understanding and designing proteins. Since evolution encodes information about function …
Efficient evolution of human antibodies from general protein language models
Natural evolution must explore a vast landscape of possible sequences for desirable yet
rare mutations, suggesting that learning from natural evolutionary strategies could guide …
rare mutations, suggesting that learning from natural evolutionary strategies could guide …
Tranception: protein fitness prediction with autoregressive transformers and inference-time retrieval
The ability to accurately model the fitness landscape of protein sequences is critical to a
wide range of applications, from quantifying the effects of human variants on disease …
wide range of applications, from quantifying the effects of human variants on disease …
Drivers and impacts of the most extreme marine heatwave events
Prolonged high-temperature extreme events in the ocean, marine heatwaves, can have
severe and long-lasting impacts on marine ecosystems, fisheries and associated services …
severe and long-lasting impacts on marine ecosystems, fisheries and associated services …
State-of-the-art estimation of protein model accuracy using AlphaFold
The problem of predicting a protein's 3D structure from its primary amino acid sequence is a
longstanding challenge in structural biology. Recently, approaches like alphafold have …
longstanding challenge in structural biology. Recently, approaches like alphafold have …
Proteingym: Large-scale benchmarks for protein fitness prediction and design
Predicting the effects of mutations in proteins is critical to many applications, from
understanding genetic disease to designing novel proteins to address our most pressing …
understanding genetic disease to designing novel proteins to address our most pressing …
Low-N protein engineering with data-efficient deep learning
Protein engineering has enormous academic and industrial potential. However, it is limited
by the lack of experimental assays that are consistent with the design goal and sufficiently …
by the lack of experimental assays that are consistent with the design goal and sufficiently …
Unsupervised evolution of protein and antibody complexes with a structure-informed language model
Large language models trained on sequence information alone can learn high-level
principles of protein design. However, beyond sequence, the three-dimensional structures of …
principles of protein design. However, beyond sequence, the three-dimensional structures of …