Motivation Functional genomics experiments generate genomewide signal profiles that are
dense information sources for annotating the regulatory elements. These profiles measure …

Motivation Epigenetic data are invaluable when determining the regulatory programs
governing a cell. Based on use of next-generation sequencing data for characterizing …

Accurate maps of promoters and enhancers are required for understanding transcriptional
regulation. Promoters and enhancers are usually mapped by integration of chromatin …

Motivation With the increasing amount of genomic and epigenomic data in the public
domain, a pressing challenge is to integrate these data to investigate the role of epigenetic …

Epigenetic regulation is dynamic and cell-type dependent. The recently available
epigenomic data in multiple cell types provide an unprecedented opportunity for a …

Regulatory elements regulate gene transcription, and their location and accessibility is cell-
type specific, particularly for enhancers. Mapping and comparing chromatin accessibility …

Background Comparative epigenomic analysis across multiple genes presents a bottleneck
for bench biologists working with NGS data. Despite the development of standardized peak …

Chromatin accessibility serves as a critical measurement of physical contact between
nuclear macromolecules and DNA sequence, providing valuable insights into the …

Motivation Epigenetic assays using next-generation sequencing (NGS) have furthered our
understanding of the functional genomic regions and the mechanisms of gene regulation …

Gene expression regulation requires precise transcriptional programs, led by transcription
factors in combination with epigenetic events. Recent advances in epigenomic and …