Loraine Lab focus: Visualizing genomes

CoolGraphicWe develop software for research scientists to explore vast genomic data sets. Since 2008, we’ve been developing and maintaining Integrated Genome Browser, a desktop visualization application (written in Java) that more than 10,000 scientists worldwide have used to visualize their data.

Originally developed at Affymetrix for visual analysis of tiling array data, IGB is now freely available, open source software for visual analysis of data from from RNA-Seq, ChIP-Seq, and other *Seq experiments.

Read more

Loraine Lab focus: Splicing under stress

Plants live their entire lives in one location and must acclimate to daily and seasonal fluctuations in temperature, water availability, and sunlight. Studying how cellular processes in plants adapt to environmental challenges will increase knowledge of how these processes function in all organisms, including humans.

We are studying how plants maintain and regulate pre-mRNA splicing, an essential process in both plants and animals, in the face of environmental stress.

Collaborative project: Regulation of floral growth and patterning in Arabidopsis thaliana

We are working with Beth Krizek of University of South Carolina, Lead Principal Investigator of NSF award titled Regulation of floral growth and patterning in Arabidopsis thaliana.

We are studying how a small family of related DNA-binding proteins control where and when flower organs form. By comparing data from RNA-Seq, ChIP-Seq, and genetic studies, we hope to identify target genes important in flower development.

For more information, see:

  • Krizek et al (2016) RNA-Seq links AINTEGUMENTA and AINTEGUMENTA-LIKE6 to cell wall remodeling and plant defense pathways in Arabidopsis