We have been told to reduce our intake of meat and due to the great marketing efforts of the soy industry many people turn to soy to replace the protein. Now there is some new scientific studies which show soy may not be the "health food' we originally thought.
Most of the soy we eat in America is processed and not fermented. In Asia, soy is fermented to eliminate the anti-nutrients and soy toxins found in raw soy-beans. It is usually eaten in small amounts in the fermented form of tempeh, miso and soy sauce and a little tofu. The tofu they eat in Japan is significantly more cultured with a much stronger taste than it is here in the states
According to Dr. Kaayla Daniel, author of The Whole Soy Story " Today's high-tech processing methods not only fail to remove the anti-nutrients and toxins that are naturally present in soy beans but leave toxic and carcinogenic residues created by the high temperatures, high pressure, alkali and acid baths and petroleum solvents"
Blocks Protein Absorption
We eat soy in an attempt to get more protein but unfermented soy contains enzyme inhibitors, which block protein absorption. Soy is rich in trypsin inhibitors. Trypsin is a digestive enzyme we need to properly digest protein. Without enough trypsin, you'll experience many digestive problems including stomach cramps and diarrhea.
Contains Anti-Nutrients
Many plants are protected by toxic anti-nutrients to ward off insects and animals that might otherwise eat them. Unlike beans, the anti-nutrients in soy don't wash off or cook off. One type of anti-nutrients is called phytates. Phytates bind to minerals like zinc, calcium, magnesium, iron and copper, and may strip them from the body, resulting in mineral deficiencies.
Creates Mucus
Soy is one of the most mucus-forming plant foods on the planet. The form of mucus it creates is called mucoid matter - not to be confused with mucus membrane. This mucus is a sticky, sludge like substance that holds up the body's flow and productivity. It accumulates and creates respiratory distress in asthmatics, creates common digestive problems like IBS and by slowing down the body's digestion and circulation systems, ultimately triggers weight gain and premature aging.
Contains Excess Estrogens
Soy is higher in phytoestrogens than just about any other food source. Phytoestrogens are plant-based estrogens that mimic estrogen in our bodies. Excess estrogen is shown to increase the risk of breast cancer endometriosis, uterine fibroids, infertility, and low libido. In 1992, the Swiss health service estimated that 100 grams of soy protein, which equals about 4 protein shakes, provided the estrogenic equivalent of a birth control pill.
Suppresses Thyroid Function
Soy is goitrogenic. Soy may damage your thyroid. Many foods are goitrogenic (thyroid suppressing), but soy is king of them all. Goitrogens work by preventing your thyroid from getting the necessary amount of iodine.
Genetically Modified
Almost all the soy grown in the US is genetically modified. It can be very difficult to get non GMO soy in the West. In addition the soy crop grown in the US contains the highest levels of poisonous pesticides. No wonder soy is among the 8 most common food allergens.
My Recommendations:
In conclusion I recommend limiting your soy intake. Avoid or reduce soy milk, soy cheese and other processed soy foods. Even the promoters of soy encourage moderation and advise that soy not be the major source of protein in one's diet.
I highly recommend eating fermented soy. Fermentation makes soy digestible to humans and takes care of many of the dangers. So when you eat soy stick to non-GMO fermented soy products like miso, tempeh, natto, or tamari (a naturally fermented soy sauce). These soy products are beneficial to your health 
