Zhen Yue

OneGenome-Rice (OGR) is a genomic foundation model for rice pre-trained on 422 genomes, outperforming existing models in 11 tasks and enabling downstream applications like trait analysis and gene expression prediction.

The paper presents 11 deep-sea coral genome assemblies, revealing evolutionary dynamics, environmental adaptation, and genetic differences between deep-sea and shallow-sea corals.

ExMODE is a multi-omics database for extremophiles that integrates and standardizes data to enable comparative analysis and bioprospecting.

Pangaea improves metagenome assembly using short-reads with barcodes, achieving better contig continuity and more complete genomes than existing assemblers.