Publications
42
Strategizing the search for bio-utility: A framework for evolution-integrated _in silico_ bioprospecting
AArcadia ScienceFeb 5, 2026
MSA-based pLMs encode evolutionary distance but don’t reliably exploit it
AArcadia ScienceJan 30, 2026
Equivalent linear mappings of deep networks are a promising path for biology
AArcadia ScienceOct 29, 2025
From black box to glass box\: Making UMAP interpretable with exact feature contributions
AArcadia ScienceOct 29, 2025
11
Mapping the spectrum of archaeal protein sequence–structure relationships
AArcadia ScienceAug 14, 2025
16
G–P Atlas\: A neural network framework for mapping genotypes to many phenotypes
AArcadia ScienceAug 7, 2025
Do protein language models understand evolution? Mixed evidence from ancestral sequences and ESM2
AArcadia ScienceJul 29, 2025