Ophiuchus: Scalable Modeling of Protein Structures through Hierarchical Coarse-graining SO(3)-Equivariant Autoencoders. - Allan dos Santos Costa; Ilan Mitnikov; Mario Geiger; Manvitha Ponnapati; Tess E. Smidt; Joseph Jacobson (CoRR, 2023)

LAB-Bench: Measuring Capabilities of Language Models for Biology Research. - Jon M. Laurent; Joseph D. Janizek; Michael Ruzo; Michaela M. Hinks; Michael J. Hammerling; Siddharth Narayanan; Manvitha Ponnapati; Andrew D. White; Samuel G. Rodriques (CoRR, 2024)

Language agents achieve superhuman synthesis of scientific knowledge. - Michael D. Skarlinski; Sam Cox; Jon M. Laurent; James D. Braza; Michaela M. Hinks; Michael J. Hammerling; Manvitha Ponnapati; Samuel G. Rodriques; Andrew D. White (CoRR, 2024)

Aviary: training language agents on challenging scientific tasks. - Siddharth Narayanan; James D. Braza; Ryan-Rhys Griffiths; Manvitha Ponnapati; Albert Bou; Jon M. Laurent; Ori Kabeli; Geemi P. Wellawatte; Sam Cox; Samuel G. Rodriques; Andrew D. White (CoRR, 2024)

RiboGen: RNA Sequence and Structure Co-Generation with Equivariant MultiFlow. - Dana Rubin; Allan dos Santos Costa; Manvitha Ponnapati; Joseph Jacobson (CoRR, 2025)