Author

J. Gillis

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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Plant Biology· 2 Bioengineering· 1 Evolutionary Biology· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 3 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Organism:plant (other)· 2 Assay:scRNA-seq· 2 Organism:Arabidopsis· 1 Research Focus:batch correction / integration· 1 Research Focus:benchmarking· 1

Frequent Co-Authors

M. J. Passalacqua· 2 shared A. Arrones· 1 shared A. Falisse· 1 shared A. Frary· 1 shared A. Gallavotti· 1 shared A. Gur· 1 shared A. Hendelman· 1 shared B. Fitzgerald· 1 shared

Activity by Year

2019-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 18 mutual co-author links

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2 shared papersEvolutionary Biology

M. J. Passalacqua

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Author profile →

4 papers

Recent·Most cited

Large-scale single-cell profiling of stem cells uncovers redundant regulators of shoot development and yield trait variation

X. Xu, M. Passalacqua, B. Rice, E. Demesa-Arevalo, M. Kojima, Y. Takebayashi, B. Harris, H. Sakakibara, A. Gallavotti, J. Gillis, D. Jackson

This study uses single-cell RNA-seq to identify stem cell regulators in maize and Arabidopsis, revealing genes linked to yield traits and shoot development.

bioRxiv · Mar 4, 2024 · PreprintPlant Biology

Convergent evolution of plant prickles is drivenby repeated gene co-option over deep time

J. W. Satterlee, D. Alonso, P. Gramazio, K. M. Jenike, J. He, A. Arrones, G. Villanueva, M. Plazas, S. Ramakrishnan, M. Benoit, I. Gentile, A. Hendelman, H. Shohat, B. Fitzgerald, G. M. Robitaille, , Z. B. Lippman

The paper investigates convergent evolution of plant prickles, finding that mutations in a cytokinin gene repeatedly cause prickle loss across species.

bioRxiv · Feb 21, 2024 · PreprintEvolutionary Biology

Coexpression enhances cross-species integration of scRNA-seq across diverse plant species

M. J. Passalacqua, J. Gillis

This paper shows that using coexpression helps integrate scRNA-seq data across different plant species by identifying non-orthologous gene pairs with similar expression patterns.

bioRxiv · Nov 28, 2023Plant Biology

Algorithmic differentiation improves the computational efficiency of OpenSim-based optimal control simulations of movement

A. Falisse, G. Serrancoli, C. L. Dembia, J. Gillis, F. De Groote

This study shows that algorithmic differentiation (AD) significantly improves computational efficiency in OpenSim-based optimal control simulations compared to finite differences (FD) and other AD tools.

bioRxiv · May 21, 2019Bioengineering