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. …

Improving Gene Annotation with Machine Learning Advancements in genome sequencing have greatly enhanced the study of organisms, but understanding genomic variation remains challenging, especially in genome annotation, which models gene transcription and translation. :dna: We refined a machine …

Revolutionizing Cross-Species Plant Genomics 🌿 PlantCaduceus is an advanced platform designed to model plant genomes across species at single nucleotide resolution. By leveraging pre-trained DNA language models, PlantCaduceus aims to capture the evolutionary conservation of plant genomes, enabling …