Author

J. R. Nery

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· 6 Cell Biology· 1

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Organism:Arabidopsis· 6 Research Focus:cell type annotation· 6 Approach:statistical model· 6 Assay:scRNA-seq· 4 Assay:bulk RNA-seq· 3 Approach:deep learning· 3 Assay:DNA methylation· 3 Research Focus:gene regulatory network inference· 3

Frequent Co-Authors

J. R. Ecker· 7 shared B. Jow· 3 shared N. Illouz-Eliaz· 3 shared T. Nobori· 3 shared A. Bartlett· 2 shared A. Yaaran· 2 shared H. Chen· 2 shared J. Swift· 2 shared

Activity by Year

2018-2023 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 30 mutual co-author links

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7 shared papersPlant Biology

J. R. Ecker

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7 papers

Recent·Most cited

Time-resolved single-cell and spatial gene regulatory atlas of plants under pathogen attack

T. Nobori, A. Monell, T. A. Lee, J. Zhou, J. R. Nery, J. R. Ecker

The paper presents a time-resolved single-cell and spatial gene regulatory atlas of Arabidopsis thaliana infected by bacterial pathogens, revealing immune responses and gene regulatory logic.

bioRxiv · Apr 10, 2023 · PreprintPlant Biology

A Single-Nucleus Atlas of Seed-to-Seed Development in Arabidopsis

T. A. Lee, T. Nobori, N. Illouz-Eliaz, J. Xu, B. Jow, J. R. Nery, J. R. Ecker

The paper creates a single-nucleus transcriptome atlas of Arabidopsis seed-to-seed development using over 800,000 nuclei across ten stages, revealing transcriptional conservation and heterogeneity in cell types.

bioRxiv · Mar 23, 2023 · PreprintPlant Biology

Stress Recovery Triggers Rapid Transcriptional Reprogramming and Activation of Immunity in Plants

N. Illouz-Eliaz, J. Yu, J. Swift, K. Lande, B. Jow, Z. K. Tuang, T. Lee, A. Yaaran, R. G. Castanon, J. R. Nery, T. Nobori, Y. Zait, S. Burdman, J. R. Ecker

This study shows that drought recovery in plants rapidly activates immune responses, enhancing pathogen resistance across multiple tomato species.

bioRxiv · Feb 27, 2023Plant Biology

Arabidopsis transcriptome responses to low water potential using high throughput plate assays

S. Gonzalez, J. Swift, A. Yaaran, J. Xu, C. Miller, N. Illouz-Eliaz, J. R. Nery, Y. Zait, W. Busch, J. R. Ecker

The paper compares transcriptional responses in Arabidopsis to different water potential reduction methods and introduces a high-throughput hard agar assay.

bioRxiv · Nov 25, 2022Plant Biology

Single nucleus multi-omics regulatory atlas of the murine pituitary

F. M. Ruf-Zamojski, Z. Zhang, M. Zamojski, G. R. Smith, N. Mendelev, H. Liu, G. Nudelman, M. Moriwaki, H. Pincas, R. Gomez Castanon, V. D. Nair, N. Seenarine, M. A. S. Amper, X. Zhou, L. Ongaro, , S. C. Sealfon

The paper creates a single nucleus multi-omics atlas of the murine pituitary, revealing cell type-specific regulatory mechanisms and identifying a cis-regulatory region linked to fertility.

bioRxiv · Jun 6, 2020 · PreprintCell Biology

Integrated Multi-omic Framework of the Plant Response to Jasmonic Acid

M. Zander, M. G. Lewsey, N. M. Clarke, L. Yin, A. Bartlett, J. P. Saldierna Guzman, E. Hann, A. Langford, B. Jow, A. Wise, J. R. Nery, H. Chen, Z. Bar-Joseph, J. Walley, R. Solano, J. R. Ecker

The paper develops an integrated multi-omic framework to study the plant response to jasmonic acid, identifying new regulatory components and crosstalk points with other signaling pathways.

bioRxiv · Aug 19, 2019Plant Biology

The complex architecture and epigenomic impact of plant T-DNA insertions

F. Jupe, A. C. Rivkin, T. P. Michael, M. Zander, S. T. Motley, J. P. Sandoval, K. R. Slotkin, H. Chen, R. Castanon, J. R. Nery, J. R. Ecker

This study characterizes the structural complexity and epigenomic impact of T-DNA insertions in Arabidopsis using long-read sequencing technologies.

bioRxiv · Sep 5, 2018Plant Biology