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Endometriosis is an estrogen-dependent disease exhibiting abnormal growth of endometrial-like tissue outside the uterine cavity in the reproductive aged women. It is estimated to affect 5-10% of reproductive-age women globally. Impaired mitochondrial biogenesis and oxidative stress induced inflammatory response in the pelvic cavity has been implicated in the pathogenesis of endometriosis. Being an inflammatory and energy metabolism associated disease, as TFAM, PGC-1 and VDR genes are involved in maintenance of mitochondrial DNA integrity and copy number, analysis of the polymorphisms of TFAM, PGC-1 and VDR in relation to mitochondrial DNA copy number will give insights to better understand the pathophysiology of endometriosis.