GreenCellAtlas
A Comprehensive Single-Cell Transcriptomics Platform
Exploring gene expression patterns across multiple plant species
Sweet wormwood - a medicinal plant renowned for artemisinin production. Single-cell analysis of shoot apex tissues reveals cellular heterogeneity and gene expression patterns.
The premier model plant for plant biology research. Comprehensive datasets for comparative studies across species.
We welcome collaborations to integrate new plant species. Contact us to propose partnerships or request specific species.
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Welcome to GreenCellAtlas, a comprehensive single-cell transcriptomics platform designed to facilitate research on gene expression patterns across multiple plant species. This platform provides an integrated resource for exploring and analyzing gene expression patterns across different cell types, identifying cell-type-specific markers, and understanding functional annotations of genes.
The platform is built using R Shiny, offering a highly responsive and intuitive environment for data exploration and visualization. Whether you are a plant biologist, bioinformatician, or researcher, this guide will help you navigate the interface and utilize the tools effectively.
Visualize gene expression patterns across different cell types using interactive t-SNE plots and heatmaps.
Identify and analyze cell-type-specific marker genes for each cell population.
Analyze genes that show significant expression differences between cell types.
Explore Gene Ontology (GO) terms, KEGG pathways, and other functional annotations.
This platform is designed to support multiple plant species beyond a single reference genome. Our architecture allows for seamless integration of additional species datasets, enabling comparative studies and broad research applications.
Single-cell transcriptomics data from shoot apex tissues. Includes gene expression patterns, cell type markers, and functional annotations.
Model plant datasets will be integrated for comparative studies. Contact us for collaboration opportunities.
We welcome collaborations to integrate new plant species. Submit your requests or propose partnerships.
This platform is developed using the following technologies and R packages:
Xicheng Zhang
Master, School of Life Science and Technology
Northwestern Polytechnical University
Dongxiang Road 1st, Chang'an District
710129 Xi'an, China
Prof. Dr. Jiyan Qi
School of Life Science and Technology
Northwestern Polytechnical University
Dongxiang Road 1st, Chang'an District
710129 Xi'an, China
Prof. Dr. Yanfei Ma
School of Life Science and Technology
Northwestern Polytechnical University
Dongxiang Road 1st, Chang'an District
710129 Xi'an, China
If you use this platform in your research, please cite:
[Citation information will be updated upon publication]
For questions, collaboration inquiries, or species requests, please contact:
Compare gene expression between two cell types to identify differentially expressed genes.
Compare effect-size differences between two Arabidopsis cell types within the selected treatment.
Compare effect-size differences between two Arabidopsis treatments within the selected cell type.
Search and analyze cell-type-specific marker genes for each cell population.
Search and analyze treatment-specific marker genes for each cell population.
Search gene IDs to explore precomputed Gene Ontology (GO) terms.
Our raw sequencing data is currently being prepared for publication on NCBI GEO.
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