Your Hypothalamus and Your Menstrual Cycle

The hypothalamus is an important part of your neuroendocrine system. It controls the interaction between your endocrine or hormone-producing system and certain parts of your nervous system. Your hypothalamus is responsible for producing the hormone that triggers the start of your menstrual cycle.

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Where Is the Hypothalamus Located?

If you drew a line from the middle of your eyebrows directly back to the center of your brain you would locate a pea-sized structure called the hypothalamus. What this part of the brain lacks in size it makes up for in function.

What Does the Hypothalamus Do?

Think of the hypothalamus as the "smart home control system" of your body. Its primary responsibility is to keep your body functions well balanced and stable. The hypothalamus controls and coordinates much of your body’s involuntary functions like temperature regulation, hunger, thirst, sleep, and mood. By acting in response to input from the brain and from other hormone-producing centers in the body, the hypothalamus adjusts the body’s internal balance or homeostasis.

Another important function of the hypothalamus is to regulate the pituitary gland. The hypothalamus produces substances called releasing hormones that activate the pituitary gland to stimulate other hormone-producing parts of your body like the thyroid and the ovary. By controlling the release of these hormones, the hypothalamus is also directly involved in your metabolism, growth, sex drive, and of course your menstrual cycle.

Menstrual Cycle Control 

Your hypothalamus produces a hormone called GnRH or gonadotropin-releasing hormone. Under normal conditions, your body releases GnRH in a pulsatile fashion. This intermittent release causes the pituitary gland to coordinate the release of two other hormones called FSH or follicle stimulating hormone and LH or luteinizing hormone. FSH, in turn, stimulates the ovary to produce estrogen and LH stimulates the ovary to produce progesterone. The cyclic changes of these hormones are responsible for your menstrual cycle which includes both ovulation and if no conception or pregnancy occurs, your menstruation or period. 

When Things Go Wrong

Since the hypothalamus is the control panel of your menstrual cycle, certain conditions that disrupt the body's balance and interfere with the healthy functioning of the hypothalamus can also interfere with your menstrual cycle. When the release of GnRH does not happen in the normal pulsatile fashion, FSH and LH are not properly produced by the pituitary gland. Without stimulation from these hormones, the ovaries do not produce estrogen and progesterone and ovulation does not occur. Without ovulation, there is no menstruation.

The technical term for missing your period is amenorrhea or literally without bleeding. When you miss your period because your hypothalamus is not functioning normally it is called hypothalamic amenorrhea. Common causes of hypothalamic amenorrhea include:

  • Psychologic stress
  • Physiologic stress
  • Chronic disease
  • Excessive exercise
  • Excessive weight loss

Hypothalamic amenorrhea is a common cause of missed periods. Depending on the extent and duration of stress on your body you may miss an occasional period or you may stop menstruating altogether.

Manipulating the Control Center

Understanding the importance of the intermittent release of GnRH from the hypothalamus led researchers to develop a type of medication that temporarily turns down your ovaries' production of estrogen and progesterone. Maintaining a constant level of GnRH in your bloodstream turns down the pituitary release of FSH and LH which in turns shuts down ovarian production of estrogen and progesterone. This class of medications known as gonadotropin-releasing hormone agonists includes leuprolide acetate or Lupron and goserelin acetate or Zoladex. These medications have an important role in treating several gynecologic conditions like uterine fibroids and endometriosis.

A Word From Verywell 

Occasionally missing your period may just be your body's normal response to stress. But missing your period especially for a few months in a row can be a sign of an underlying problem or other imbalance in your body.

As always, if you are experiencing any problems with your menstrual cycle please discuss it with your healthcare provider.

Updated by: Andrea Chisholm MD

5 Sources
Verywell Health uses only high-quality sources, including peer-reviewed studies, to support the facts within our articles. Read our editorial process to learn more about how we fact-check and keep our content accurate, reliable, and trustworthy.
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  2. Lechan RM. Functional Anatomy of the Hypothalamus and Pituitary. Endotext [Internet]. November 2016.

  3. Marques P. Physiology of GNRH and Gonadotropin Secretion. Endotext [Internet]. June 2018.

  4. Meczekalski B, Katulski K, Czyzyk A, Podfigurna-stopa A, Maciejewska-jeske M. Functional hypothalamic amenorrhea and its influence on women's health. J Endocrinol Invest. 2014;37(11):1049-56. doi:10.1007/s40618-014-0169-3

  5. Kumar P, Sharma A. Gonadotropin-releasing hormone analogs: Understanding advantages and limitations. J Hum Reprod Sci. 2014;7(3):170-4. doi:10.4103/0974-1208.142476

Additional Reading

By Tracee Cornforth
Tracee Cornforth is a freelance writer who covers menstruation, menstrual disorders, and other women's health issues.