Abstract Characterization of the spatiotemporal properties of the chromatin is essential to
gaining insights into the physical bases of gene co-expression, transcriptional regulation …

Epigenetic mechanisms, primarily mediated through histone and DNA modifications, play a
pivotal role in orchestrating the functional identity of a cell and its response to environmental …

The 3D conformations of chromosomes can encode biological significance, and the
implications of such structures have been increasingly appreciated recently. Certain …

Motivation A growing amount of noncoding genetic variants, including single-nucleotide
polymorphisms, are found to be associated with complex human traits and diseases. Their …

Chromatin within the nucleus adopts complex three-dimensional structures that are crucial
for gene regulation and cellular function. Recent studies have revealed the presence of …

Characterizing the genomes of living organisms increasingly involves extensive use of
computational tools for data processing and analysis. During my PhD, I have developed and …