Welcome to GreenCells!

Single-cell RNA-seq is a powerful technique for exploring gene expression while preserving cellular heterogeneity. Many single-cell studies mainly focus on the analysis of protein-coding gene, while the investigation of lncRNAs has not been fully explored, especially in plants.
Therefore, we have developed GreenCells, a comprehensive platform dedicated to exploring the characterization, expression patterns, and functions of lncRNAs in plants. GreenCells consolidates single-cell transcriptome sequencing data covering 14 tissues across 8 plant species, encompassing 179 samples from the 10x Genomics platform and 4,511 samples from Smart-seq. The database incorporates annotations for 87,311 lncRNAs and employs visualization techniques like UMAP and t-SNE to visualize the cell clusters annotated by us, and identified 63,802 mRNA and 1,666 lncRNA marker among these annotated cell clusters. Furthermore, we constructed cell-type-level co-expression networks and run GO enrichment analysi for each clusters along with inferred cell-cell communication. GreenCells also offers a suite of tools, including a powerful multi-way search engine, BLAST tools, personalized single-cell analysis scripts tailored for both 10x Genomics and Smart-seq data, and a network exploration tool .