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Anatomical anomalies, deviations from the typical structure of an organism, are increasingly recognized as important contributors to the pathogenesis and clinical manifestations of various diseases. This research article provides a comprehensive overview of anatomical anomalies in disease, exploring their prevalence, etiology, and clinical implications across different medical specialties. We examine the diverse manifestations of anatomical anomalies in the context of specific disease states, ranging from congenital malformations and developmental disorders to acquired conditions and degenerative diseases. Additionally, we discuss the underlying mechanisms linking anatomical anomalies to disease pathogenesis, including genetic mutations, environmental exposures, and disruptions in developmental processes. By synthesizing evidence from clinical studies, case reports, and experimental research, this article aims to deepen our understanding of the role of anatomical anomalies in disease and their implications for diagnosis, treatment, and patient care.