Launching genomics into the cloud: deployment of Mercury, a next generation sequence analysis pipeline. - Jeffrey G. Reid; Andrew Carroll; Narayanan Veeraraghavan; Mahmoud Dahdouli; Andreas Sundquist; Adam C. English; Matthew N. Bainbridge; Simon White; William J. Salerno; Christian Buhay; Fuli Yu; Donna M. Muzny; et al. (BMC Bioinform., 2014)

A hybrid computational strategy to address WGS variant analysis in >5000 samples. - Zhuoyi Huang; Navin Rustagi; Narayanan Veeraraghavan; Andrew Carroll; Richard A. Gibbs; Eric Boerwinkle; Manjunath Gorentla Venkata; Fuli Yu (BMC Bioinform., 2016)

Learning from Data-Rich Problems: A Case Study on Genetic Variant Calling. - Ren Yi; Pi-Chuan Chang; Gunjan Baid; Andrew Carroll (CoRR, 2019)

A crowdsourced set of curated structural variants for the human genome. - Lesley M. Chapman; Noah Spies; Patrick Pai; Chun Shen Lim; Andrew Carroll; Giuseppe Narzisi; Christopher M. Watson; Christos Proukakis; Wayne E. Clarke; Naoki Nariai; Eric T. Dawson; Garan Jones; et al. (PLoS Comput. Biol., 2020)

Accurate, scalable cohort variant calls using DeepVariant and GLnexus. - Taedong Yun; Helen Li; Pi-Chuan Chang; Michael F. Lin; Andrew Carroll; Cory Y. McLean (Bioinform., 2021)

Knowledge distillation for fast and accurate DNA sequence correction. - Anastasiya Belyaeva; Joel Shor; Daniel E. Cook; Kishwar Shafin; Daniel Liu; Armin Töpfer; Aaron M. Wenger; William J. Rowell; Howard Yang; Alexey Kolesnikov; Cory Y. McLean; Maria Nattestad; et al. (CoRR, 2022)

Multimodal LLMs for Health Grounded in Individual-Specific Data. - Anastasiya Belyaeva; Justin Cosentino; Farhad Hormozdiari; Krish Eswaran; Shravya Shetty; Greg Corrado; Andrew Carroll; Cory Y. McLean; Nicholas A. Furlotte (ML4MHD, 2023)

Towards Generalist Biomedical AI. - Tao Tu 001; Shekoofeh Azizi; Danny Driess; Mike Schaekermann; Mohamed Amin; Pi-Chuan Chang; Andrew Carroll; Chuck Lau; Ryutaro Tanno; Ira Ktena; Basil Mustafa; Aakanksha Chowdhery; et al. (CoRR, 2023)

Improving variant calling using population data and deep learning. - Nae-Chyun Chen; Alexey Kolesnikov; Sidharth Goel; Taedong Yun; Pi-Chuan Chang; Andrew Carroll (BMC Bioinform., 2023)

Towards an AI co-scientist. - Juraj Gottweis; Wei-Hung Weng; Alexander N. Daryin; Tao Tu 001; Anil Palepu; Petar Sirkovic; Artiom Myaskovsky; Felix Weissenberger; Keran Rong; Ryutaro Tanno; Khaled Saab 003; Dan Popovici; et al. (CoRR, 2025)

Accurate human genome analysis with element avidity sequencing. - Andrew Carroll; Alexey Kolesnikov; Daniel E. Cook; Lucas Brambrink; Kelly N. Wiseman; Sophie M. Billings; Semyon Kruglyak; Bryan R. Lajoie; Junhua Zhao; Shawn E. Levy; Cory Y. McLean; Kishwar Shafin; et al. (BMC Bioinform., 2025)