Author

Chi‐Kuo Hu

Stony Brook UniversityORCID 0000-0002-9773-972XUnclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Biophysics· 1 Genomics· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Research Focus:differential expression· 2 Approach:experimental assay· 2 Approach:statistical model· 2 Organism:Arabidopsis· 1 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Assay:ChIP-seq· 1

Frequent Co-Authors

Aleksandra M. KrzywańskaiD· 1 shared Anne BrunetiD· 1 shared Brian S. ClarkiD· 1 shared Ellen G. Harding· 1 shared Evan YangiD· 1 shared Gregory Adam ReevesiD· 1 shared Jason Wayne MiklasiD· 1 shared Joshua AzukasiD· 1 shared

Activity by Year

2024-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 12 mutual co-author links

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1 shared paperNeuroscience

Aleksandra M. KrzywańskaORCID

Mutual co-authors in cluster

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3 papers

Recent·Most cited

GENIE: a multi-agent system for closed-loop autonomous microscopy

Wilson Nieves Vasquez, Jun Lin, Joshua Azukas, Evan Yang, Chi‐Kuo Hu, Tengfei Ma, Lina Carlini

GENIE creates an autonomous microscopy system that translates natural language goals into executable experiments and statistical analyses.

bioRxiv · Oct 13, 2026 · PreprintBiophysics

Evolution of diapause in the African turquoise killifish by remodeling ancient gene regulatory landscape

Param Priya Singh, Gregory Adam Reeves, Kévin Contrepois, Katharina Papsdorf, Jason Wayne Miklas, Mathew Ellenberger, Chi‐Kuo Hu, Michael P. Snyder, Anne Brunet

This study identifies regulatory innovations in ancient gene programs that drive diapause in the African turquoise killifish, linking chromatin changes to lipid metabolism and survival.

Cell · May 28, 2024Peer-reviewedGenomics

Age-related dysregulation of the retinal transcriptome in African turquoise killifish

Steven Bergmans, Nicole C. L. Noel, Luca Masin, Ellen G. Harding, Aleksandra M. Krzywańska, Julie D. De Schutter, Rajagopal Ayana, Chi‐Kuo Hu, Lut Arckens, Philip A. Ruzycki, Ryan B. MacDonald, Brian S. Clark, Lieve Moons

This study uses bulk and single-cell RNA-seq to analyze age-related transcriptome changes in the African turquoise killifish retina, identifying oxidative stress, gliosis, and inflammageing, and highlighting dysregulation of retinal disease genes.

Aging Cell · May 14, 2024Peer-reviewedNeuroscience