Includes bibliographical references and index.

Decoding Gene Regulation through Genome Architecture Using Molecular Simulations: This thesis explores how the three-dimensional organization of the genome influences gene regulation and the control of gene expression. Using molecular simulation techniques, the research investigates structural features and molecular interactions involving DNA, regulatory elements, and associated molecules that contribute to gene activity. It aims to improve understanding of the relationship between genome architecture and regulatory mechanisms at the molecular level. The study contributes to computational and molecular biology by examining how the organization and dynamics of genomic structures help explain the complex processes governing gene expression.