Brandon Monier

This study identifies the polygenic architecture of photoprotection in sorghum through a high-throughput screen of natural genetic variation in non-photochemical quenching traits.

reelGene evaluates gene models using machine learning and evolutionary data, finding 28% of maize gene models are incorrectly annotated or nonfunctional.

The paper identifies genes under relaxed selection in cassava due to clonal propagation, highlighting pollen-related genes and their implications for breeding.

rTASSEL provides an R interface to TASSEL for association mapping, offering faster performance than other R packages for genomic analyses.

The paper introduces the Practical Haplotype Graph (PHG) platform for storing and using pangenomes, demonstrating its effectiveness in imputing genomes from low-coverage data in crops like maize.

The paper shows that variations in upstream open reading frames (uORFs) affect protein abundance by repressing or derepressing translation of the main open reading frame (mORF), contributing to allelic diversity in protein levels.

IRIS-DGE is a server-based tool for differential gene expression analysis that integrates multiple R-based methods and provides interactive visualizations for RNA-seq data.

ViDGER provides visualization tools to interpret DGE results from RNA-seq data using Cuffdiff, DESeq2, and edgeR.