Epigenomic signatures of immune system aging
The functional decline of the immune system with aging, i.e., immunosenescence, has been associated with increased disease susceptibility, infections, and poor response to treatments and vaccination in elderly. However, we have yet to discover which genes, enhancers and regulatory interactions in whichimmune cells can explain the functional decline of immune functions with aging. In collaboration with the Banchereau Lab we work towards uncovering chromatin signatures of human immune system aging and to quantify the clinical implications of these signatures.
Chromatin interaction data analyses
Genome-wide chromatin interaction maps, e.g. ChIA-PET and HiC datasets, are the starting point from which we can infer distal regulatory interactionsand their system-level effects by modeling them in the form of interaction networks. We develop machine learning and network mining methods that facilitate data integration and interpretation.
Epigenomic changes associated with T2D
In collaboration with the Stitzel lab we are uncovering genomic and epigenomic changes that can explain islet dysfunction in Type-2-Diabetes (T2D). For this we profile epigenomes and transcriptomes of human islet samples from healthy and diabetic individuals. We develop computational methods to integrate diverse genomics data along with the genetic information.
Novel methods to integrate and analyze genomic data
We develop integrative statistical methods and software tools that are tailored to out datasets and biological questions. We develop machine learning models or network mining algorithms to integrate and interpret genomics data under the light of data accumulated in public repositories.