CARIBOU is a multi-agent AI system that autonomously performs bioinformatics analyses using HPC environments, adapting and refining workflows across datasets.

bioRxiv · May 28, 2026 · PreprintBioinformatics

A cell type-aware framework for nominating non-coding variants in Mendelian regulatory disorders

Arthur S. Lee, Lauren J. Ayers, Michael Kosicki, Wai Man Chan, Lydia Fozo, Brandon M. Pratt, Thomas E. Collins, Boxun Zhao, Matthew F. Rose, Alba Sanchis‐Juan, Jack M. Fu, Isaac Wong, Xuefang Zhao, Alan P. Tenney, Cassia C. Lee, , Elizabeth C. Engle

The paper develops a cell type-aware framework to identify non-coding variants in Mendelian disorders by integrating single-cell multi-omic data and applying it to congenital cranial dysinnervation disorders.

Nature Communications · Sep 27, 2024Peer-reviewedGenetic & Genomic Medicine

Stem cell-derived cranial and spinal motor neurons reveal proteostatic differences between ALS resistant and sensitive motor neurons

Disi An, Ryosuke Fujiki, Dylan E. Iannitelli, John W. Smerdon, Shuvadeep Maity, Matthew F. Rose, Alon Gelber, Elizabeth K. Wanaselja, Ilona Yagudayeva, Joun Y. Lee, Christine Vogel, Hynek Wichterle, Elizabeth C. Engle, Esteban O. Mazzoni

The paper identifies proteostatic differences between ALS-resistant and sensitive motor neurons using stem cell-derived models.

eLife · Jun 3, 2019Peer-reviewedNeuroscience