Publications
GeneCAD: Plant Genome …
GeneCAD at a glance GeneCAD is a sequence-only annotation pipeline that turns genome sequence into complete, biologically coherent plant gene models (GFF3) using a DNA foundation model (PlantCAD2), a ModernBERT head, and a chromosome-wide CRF—no RNA-seq, no proteomics, no homology inputs needed. …
Nitrogen-Efficient …
Overview “Designing a nitrogen-efficient cold-tolerant maize for modern agricultural systems” (Ojeda-Rivera et al., 2025) introduces the CERCA ideotype—a conceptual maize blueprint that synchronizes crop growth with natural nitrogen cycling. The paper identifies long-standing bottlenecks in …
Maize Genome Evolution
Overview Our latest preprint, “Extensive genome evolution distinguishes maize within a stable tribe of grasses,” presents a comprehensive analysis of 33 genome assemblies from 27 species within the Andropogoneae tribe. The study captures a dynamic picture of genome evolution, revealing …