Featured projects ongoing or completed by Dr. Ay.
3D Nucleome Tutorial at ACM-BCB 2015
Computational Analysis and Modeling of Chromatin Spatial Organization
Fit-Hi-C: Statistical confidence estimation for Hi-C data
Fit-Hi-C is a tool for assigning statistical confidence estimates to intra-chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C.
P. falciparum 3D genome organization
Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression
P. falciparum epigenetic gene regulation
The third dimension of epigenetic gene regulation in the malaria parasite Plasmodium falciparum.
DNase Hi-C assay
Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of lincRNA genes in human cells.