Shared Spatial & Single-Cell DATA Resources

Maize and Arabidopsis inflorescence stem cells single-cell RNA-seq atlas

Reference

Xiaosa Xu*, Michael Passalacqua, Brian Rice, Edgar Demesa-Arevalo, Mikiko Kojima, Yumiko Takebayashi, Xingyao Yu, Benjamin Harris, Yuchen Liu, Andrea Gallavotti, Hitoshi Sakakibara, Jesse Gillis, David Jackson*. (2025). Large-scale single-cell profiling of stem cells uncovers redundant regulators of shoot development and yield trait variation. Developmental Cell. 60, 1–13. (*Co-corresponding authors) link

Maize wild type B73 ear tip (IM/early SPM) Single-Cell RNA-seq 2D Clusters and Gene Expression

Maize fea3;Zmcle7 vs wild type B73 ear tip Single-Cell RNA-seq 2D Clusters and Gene Expression

Maize Bif3 vs wild type B73 ear tip Single-Cell RNA-seq 2D Clusters and Gene Expression

Arabidopsis inflorescence Single-Cell RNA-seq 2D Clusters and Gene Expression

++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++

Spatial and single-cell expression analyses reveal complex expression domains in early wheat spike development

Reference

Xiaosa Xu*†, Huiqiong Lin†, Junli Zhang†, German Burguener, Francine Paraiso, Connor Tumelty, Chengxia Li, Yuchen Liu, Jorge Dubcovsky*. (2025). Spatial and single-cell expression analyses reveal complex expression domains in early wheat spike development. Genome Biology. 26:352. (*Co-corresponding authors, †These authors contributed equally). link

Wheat Spike Single-Cell RNA-seq 2D Clusters and Gene Expression

Wheat Spike Single-Cell RNA-seq 3D Clusters

Wheat Spike smFISH Spatial Clusters and Gene Expression of 99 Genes

Integration and Imputation of Wheat Spike Single-Cell RNA-seq and smFISH Data for Spatial Visualization of Gene Expression

++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++

Maize ear inflorescence single-cell RNA-seq atlas

Reference

Xiaosa Xu, Megan Crow, Brian R. Rice, Forrest Li, Benjamin Harris, Lei Liu, Edgar Demesa-Arevalo, Zefu Lu, Liya Wang, Nathan Fox, Xiaofei Wang, Jorg Drenknow, Anding Luo, Si Nian Char, Bing Yang, Anne W. Sylvester, Thomas R. Gingeras, Robert J. Schmitz, Doreen Ware, Alexander E. Lipka, Jesse Gillis, David Jackson. (2021). Single-cell RNA sequencing of developing maize ears facilitates functional analysis and trait candidate gene discovery. Developmental Cell. 56(4):557-568. link

Maize wild type B73 whole ear Single-Cell RNA-seq 2D Clusters and Gene Expression

++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++

Integration and imputation of single-cell and spatial transcriptomics uncover meristem dynamics in maize ear inflorescence

Reference

Unpublished. Please email both Drs. Xiaosa Xu <xjkxu@ucdavis.edu> and David Jackson <jacksond@cshl.edu> before using the data for your research publications.

Maize Ear smFISH Spatial Clusters and Gene Expression of 60 Genes

Integration and Imputation of Maize Ear Single-Cell RNA-seq and smFISH Data for Spatial Visualization of Gene Expression

Page updated

Report abuse