Author

Jacob McCarley

Allen Institute for Cell Science

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 1 Cell Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:clustering· 2 Approach:deep learning· 2 Research Focus:differential expression· 2 Organism:human· 2 Research Focus:cell type annotation· 1 Assay:CRISPR screen· 1 Assay:fluorescence / live-cell microscopy· 1 Approach:statistical model· 1

Frequent Co-Authors

Brock RobertsiD· 2 shared Erik A. EhlersiD· 2 shared Amber PhaniD· 1 shared Benjamin MorrisiD· 1 shared Caroline HookwayiD· 1 shared Chamari S. WijesooriyaiD· 1 shared Chantelle L. LeveilleiD· 1 shared Clare Ruth GamliniD· 1 shared

Activity by Year

2024-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 38 mutual co-author links

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2 shared papersBiophysics

Brock RobertsORCID

Mutual co-authors in cluster

Author profile →

2 papers

Recent·Most cited

Dynamics of ML-based Morphological Features Indicate a Shear Stress-Dependent Bifurcation of hiPSC-Derived Endothelial Cell States

Erin Angelini, Chantelle L. Leveille, Serge E. Parent, Rebecca J. Zaunbrecher, Tiffany Barszczewski, Julie C. Dixon, Fatwir S. Mohammed, Benjamin Morris, Jessica S. Yu, Joy Arakaki, Renske J. Dupar, Jacqueline H. Edmonds, Erik A. Ehlers, Clare Ruth Gamlin, Maxwell J. Hedayati, , Matheus Palhares Viana

The paper uses ML to analyze morphological dynamics of hiPSC-derived endothelial cells under shear stress, identifying a bifurcation between two stable cell states.

bioRxiv · Jul 11, 2026 · PreprintBiophysics

Enhanced endogenous gene tagging in human induced pluripotent stem cells via AAV6-mediated donor delivery

Erik A. Ehlers, Kyle N. Klein, Margaret A. Fuqua, Julia R. Torvi, Javier Chávez, Lauren M. Kuo, Jacob McCarley, Jacqueline E. Smith, Gaea Turman, Danielle Yi, Ruwanthi N. Gunawardane, Brock Roberts

This paper develops a method to efficiently insert fluorescent tags into genes not expressed in hiPSCs using AAV6 delivery, optimized CRISPR conditions, and ddPCR/ICE to minimize INDELs and isolate tagged clones.

bioRxiv · May 24, 2024 · PreprintCell Biology