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To begin with I have hyperthyroid. And, yes, untreated it can affect the baby. I went my first four months untreated. However, it sounds like your doctor is taking appropriate measures. She should continue to get tested monthly and should also be taking her pills daily. If so, I wouldn't worry about it too much. Besides, aside from that there is not much else you can do.
On another note all together. TSH testing is an outdated way to tell if your thyroid or something it is connected to is off. More and more evidence is coming forward but the medical world has not caught up. Certain antibodies can throw off this test all together. So in reality your wife may be taking a higher dose then needed. When it comes down to it, your symptoms will tell a much better and bigger story then a TSH test. That is what you really need to be monitoring.
Two websites that my doctor recommended me to that breaks down thyroid in a readable fashion are:
http://www.thyroidbook.com/http
/www.stopthethyroidmadness.com/With that being said I have done ample research in various medical journals that back up this information.
If anything, it may not hurt to get these tests done at a bare minimum- antibodies, Free T3, Free T4, Vit D, and maybe your adrenaline levels.
Thyroid issues have controlled so much in my life up to this point unknowingly, I wish it on no one. But, it can be managed and as a patient you need to take control through education of yourself and your practitioner (and if your practitioner is not willing to bend, you may want to go else where).
Good luck. And, I have spoke to plenty of women who have had wonderful healthy babies who have had thyroid issues.View Thread

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