Our research is at the interface of statistics and biological sciences. Our research interests lie in two interrelated directions:
1) developing statistical methods for understanding biological questions, especially those related to large-scale genomic data;
2) identifying, formulating, and resolving important, yet not previously addressed statistical questions arising from the frontiers of biology.
The specific topics we have examined include:
  • Statistics:
    • Measures of association 
    • High-dimensional linear model inference and variable selection 
    • Bipartite network stochastic block model inference 
    • Controlling asymmetric errors in binary classification 
  • Bioinformatics / Statistical Genomics:
    • Statistical modeling and analysis of next-generation RNA sequencing data 
    • Comparative genomics: developing novel statistical methods to investigate conserved or divergent biological phenomena in different tissue and cell types across multiple species 
    • Using statistics to quantitate the Central Dogma, the fundamental principle of molecular biology 
    • Identification of gene-gene and protein-DNA interactions using diverse genomic data 

Featured Research

The advancement of next-generation high-throughput sequencing technologies has been revolutionizing genomic studies in the last decade. In particular, the RNA sequencing (RNA-Seq) technology, which has deep coverage and base level resolution, enables investigating human and other eukaryotic species’ transcriptomes (i.e., sets of RNA molecules in cells) with unprecedented detail and clarity. Unlike previous technologies such as microarrays, RNA-Seq provides information on alternative splicing (i.e., how is the DNA of one gene possibly transcribed into multiple RNA...

We have developed two new statistical metrics “TROM” (TRanscriptome Overlap Measure) and “EPOM” (EPigenome Overlap Measure) to evaluate the similarity of transcriptomes andepigenomes (i.e., sets of chemical compounds that are not part of the DNA sequence but are on or attached to DNA) within and across species. In work with the modENCODE consortium [1, 2, and 3], we used TROM to discover a previously unknown conservation between the developmental stages of D. melanogaster and C. elegans, two vastly different model organisms...

We have also worked on statistical methodology development in the following projects, which were motivated by prominent biomedical research questions. The methods my co-authors and I developed have great potential to become critical tools in computational biology and medical informatics.

First, we have developed a “new R²” association measure for describing complex gene interactions. Capturing important gene expression relationships is a key component in computational biology research (e.g. network study). Commonly used measures such as Pearson correlation and...