Qingyong Yang

PlantGeneAnn: a high-accuracy ab initio plant gene annotation tool fine-tuned from a genome foundation model

PlantGeneAnn is a plant-optimized gene annotation tool that outperforms existing methods on a 20-species benchmark and enables efficient fine-tuning for non-model species.

PCMD: A Multilevel Comparison Database of Intra- and Cross-species Metabolic Profiling in 530 Plant Species

PCMD provides a multi-level comparative metabolomics database for 530 plant species, enabling species and metabolite comparisons with standardized numbering and analysis tools.

BnIR: a multi-omics database with various tools for Brassica napus research and breeding

The paper introduces BnIR, a multi-omics database for rapeseed that integrates six omics datasets and provides tools for analyzing variation-gene expression-phenotype associations.