W. Brad Barbazuk

The paper develops simCRISPR, a simulation framework for pooled CRISPR screens, evaluates normalization strategies for detecting gene-by-environment interactions, and shows improved results with safe-harbor normalization.

This paper develops a 3D CRISPR screening system using HepG2/C3A spheroids to improve the identification of genetic determinants of chemical toxicity compared to traditional 2D methods.

This study identifies 340 genes modulating PFOS-induced cytotoxicity in liver cells using CRISPR screens and validates two genes, SLC6A9 and CPSF2, with functional and molecular evidence.

The paper identifies C18orf32 as a novel regulator of lipid metabolism involved in PFOA-induced toxicity through CRISPR screening and transcriptomic analysis.

The paper identifies common loss-of-function genes and develops a method to integrate them into cell-based models to assess population variability in chemical susceptibility.

This study provides a genome and epigenomic analysis of the invasive fern Lygodium microphyllum, revealing differences between its gametophyte and sporophyte life phases and their responses to freezing stress.

The paper identifies McHY5 as a transcription factor that activates PPCK1, a key CAM enzyme, during the C3-to-CAM transition in ice plant, revealing regulatory divergence between CAM and C3 species.

The paper uses snRNA-seq to study CAM induction in ice plant mesophyll cells, revealing circadian gene expression differences between CAM and C3 pathways.

This study shows that RBM48 mutations cause U12-type intron retention in human cells and identifies conserved genes affected in both human and maize RBM48 mutants.

The paper introduces miTAR, a hybrid deep learning model for miRNA target prediction, achieving higher accuracy than existing methods on two datasets.

Long-read assemblies of an inbred cannabis trio plus whole-genome sequencing of 40 cultivars link cannabinoid synthase gene deletions to chemotype and associate CsTLP1 loss with powdery mildew susceptibility.

This paper presents the avocado genome, revealing its phylogenetic position, introgressive hybridization, and pathogen-driven gene space adaptation.

The paper identifies evolutionarily conserved alternative splicing events across nine plant species and finds they are enriched in signaling pathway-related genes.