C-REx: A shiny web application to compare RNA expression
C-REx implements a novel statistical method that was designed to assess significance of differences in RNA expression levels among specified groups of genes. This Shiny web application called C-REx (Comparison of RNA Expression) enables researchers to readily test hypotheses about whether specific gene groups share expression profiles and whether those profiles differ from those of other groups of genes. The method implemented via C-REx is more sensitive than GO enrichment when fold change between conditions is small.
Gene Ontology Meta Annotator for Plants (GOMAP) is a high-throughput pipeline to annotate GO terms to plant protein sequences in a high-confidence and reproducible manner. It combines sequence-similarity, domain-presence and mixed-method based approaches and we are currently applying it to the reference genomes of several agriculturally important plants (maize, wheat, rice, cotton, soybean). All generated annotation datasets as well as the source code are publicly available.
The ENVIRATRON project is a phenomics platform that enables researchers to monitor the performance of plants throughout their lifespan when subject to a variety of environmental conditions, including anticipated future environments. The ENVIRATRON will permit researchers to incrementally alter critical variables to better simulate changing conditions that we face in the future.
CRISPR Genome Analysis Tool works in two steps: 1) Identify potential target sites for CRISPR gene editing in DNA sequences. 2) Optionally, use identified target sequences from step 1 to search a genome of interest for potential off-target matches.