PlantRegMoD: An integrative and AI-driven multi-omics database for plant regeneration research
Li, Y.-M.; Ma, Y.-B.; Gui, L.-Y.; Tang, Y.; Meng, C.; Li, Y.; Yao, L.; Zhang, J.; Xia, S.; Peng, Y.; Song, S.; Zeng, Z.; He, J.-B.; Zhang, N.; Xiao, P.-X.; Xu, Y.; Tan, L.; Iwase, A.; Chen, C.; Jiao, W.-B.
Show abstract
Plant regeneration underpins plant developmental plasticity, tissue culture, genetic transformation and crop improvement. Although numerous related omics datasets have been generated, specialized multi-omics databases for this field are still scarce. Here, we constructed PlantRegMoD, an AI-powered integrated database dedicated to plant regeneration. This platform hosts 20.54 TB standardized multi-omics data from 147 projects across 32 plant species and 2,593 samples. We established a unified hierarchical classification system covering five major categories and nine regeneration models, and curated 236 regeneration genes as well as their 28,190 homologs across 58 representative plant species. It contains extensive transcriptomic resources across all regeneration models, together with 196,423 single cells and over 8.81 million epigenetic peaks to dissect cellular heterogeneity and multi-layered epigenetic regulation. Equipped with nine online omics-related tools and a RAG-based intelligent Q&A system, PlantRegMoD greatly reduces bioinformatic barriers and serves as a robust resource for mechanistic, functional and evolutionary studies of plant regeneration.
Matching journals
The top 5 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Imputation integrates single-cell and spatial gene expression data to resolve transcriptional networks in barley shoot meristem development 94%
- A transcriptional atlas of early Arabidopsis seed development suggests mechanisms for inter-tissue coordination 93%
- Comparative transcriptomics in ferns reveals key innovations and divergent evolution of secondary cell wall 93%
Similar papers in this journal
- Diversification of gene expression across extremophytes and stress-sensitive species in the Brassicaceae 94%
- Chromosome-level genome assembly of Torreya grandis provides insights into the origin and evolution of gymnosperm-specific sciadonic acid biosynthesis 94%
- Reference genome and resequencing of 305 accessions provide insights into spinach evolution, domestication and genetic basis of agronomic traits 93%
Similar papers in this journal
- Deciphering the Sequence Basis and Application of Transcriptional Initiation Regulation in Plant Genomes Through Deep Learning 95%
- Cross-Species Prediction of Histone Modifications in Plants via Deep Learning 92%
- WUSCHEL-dependent chromatin regulation in maize inflorescence development at single-cell resolution 92%
Similar papers in this journal
Similar papers in this journal
- Genome sequences of the five Sitopsis species of Aegilops and the origin of polyploid wheat B-subgenome 92%
- PlantScience.ai: An LLM-Powered Virtual Scientist for Plant Science 91%
- Varigraph: an accurate and widely applicable pangenome graph-based variant genotyper for diploid and polyploid genomes 91%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.