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The Autoimmune Protocol

May 2013 Update

The article below details the factors involved in the causes of, and therefore reversal of, autoimmune conditions. In cases where there is severe tissue damage, such as long standing MS or Motor Neurone Disease, the autoimmune condition can be routinely reversed using the correct combination of remedies. Tissue damage, however, may take time to heal and in some cases may be partial or insignificant, depending on the remedy regime, the age of the person and other factors.

In addition to the auto-immune protocol, we now have another, more basic, regimen (link below) that may prove a useful step in the resolution of autoimmune conditions. We would now recommend this as a starting point before moving on to the autoimmune protocol detailed below.

The reader is also encouraged to find the articles related to their particular condition listed in the Health Conditions list

With regards to Iodine; we would recommend not using Iodine if you have low adrenal function. Please refer to the article here for further details or if in doubt.

Autoimmune diseases result from the body's immune system being incorrectly activated to defend against organs, tissues or substances that are naturally present in the body. These body components are attacked by the immune system as if they were bodily invaders. Essentially, the body attacks it's own cells. There are many different autoimmune conditions (over 100), just like there are many cancers, however unlike cancers, each autoimmune condition tends to be individually named and treated as a singular condition rather than grouped together under the auspices of "autoimmune". Regardless of what organ or part(s) of the body come under attack (and hence the name given to the condition) there are common underlying contributing factors with all autoimmune diseases. It is these underlying factors that we seek to address. The purpose of this article is to provide a broad, stepped, approach to dealing with the underlying factors of autoimmune conditions. We also provide recommendations that are specific to many autoimmune conditions, these recommendations can be found in the health conditions list here, but these recommendations are made for support of the main protocol detailed here, not in place of it.
Autoimmune conditions include but are not limited to:
Lupus, Type 1 Diabetes, Scleroderma, Celiac, Multiple Sclerosis, Crohn's Disease, Autoimmune Hepatitis, Graves' Disease, Myasthenia Gravis, Myositis, Antiphospholipid Syndrome (APS), Uveitis, Polymyositis, Raynaud's Disease, Demyelinating Neuropathies, Osteo-Arthritis, Rheumatoid Arthritis (also the rarer forms of arthritis e.g. Reiter's, Behcet's and Sjogrens Syndromes), Ankylosing Spondylitis, Migraine and cluster headaches, Carpel Tunnel Syndrome, Fibromyalgia, M.E. (Chronic Fatigue Syndrome), Asthma, Psoriasis, Macular Degeneration, Hypertension, Sciatica, Prostrate Inflammation, Emphysema, Cystitis (especially Interstitial Cystitis) and all inflammatory bowel diseases.
Many other chronic health disorders are increasingly being recognized as having an auto-immune component, including diseases traditionally recognized as 'degenerative' such as Alzheimer's and certain Circulatory Disorders.
The underlying causes of autoimmune diseases
1. Infections known and unknown
Infections of various types, known and unknown (but usually Candida Albicans overgrowth) contribute to auto-immune disorders. Eliminating these chronic infections, even if you don't know they are there, is essential to achieve freedom from or at least amelioration of auto-immune disorders.
2. Heavy metals and other toxins
After infections, the most important and prevalent underlying cause of autoimmune disorders is body toxicity (heavy metals, pesticides etc).
The Autoimmune Protocol
Step 1
Essential supplementation for Support through the stages of elimination
Click on the above remedies to read the full detailed article
It is beneficial to start with these remedies as the first step, as they will calm the immune system before you start on the elimination of underlying causes. By calming the immune system initially one should be more able to tackle the requirements of the coming stages of elimination. These remedies should be maintained throughout all steps of the programme. We suggest that these be introduced at least 2 weeks before you proceed with Step 2, longer if after 2 weeks you are not yet responding and demonstrating a noticably calmer immune response.
Step 1 should also include one of the anti-infection remedies from Step 2. We suggest that Iodine be selected, as you will use this throughout all 4 steps.
Step 2
Dealing with the underlying infection(s)
We have complete information on dealing with infections in our separate article here
In brief, this article suggests the use of the following specific anti-infection remedies/supplements:-

* We would recommend not using Iodine if you have low adrenal function. Please refer to the article here for further details or if in doubt.

Click on the above remedies to read the full detailed article.

Supporting the action of these above remedies is dealt with in Section 1 of the article which relates to boosting the immune system.

In brief, this article suggests the use of the following remedies/supplements:-

Click on the above remedies to read the full detailed article.

Note: Remember to continue with the Step 1 remedies throughout this step

There are some additional measures that can be taken in dealing with Candida Albicans overgrowth. Please see the full article here.
Note on Iodine: this should be continued after the completion of step 2, as it has a continuing role in immune system function. For more details of its use in this regard see Step 4 below, where you may wish to replace or enhance the Lugol's solution with Seagreens, another source of Iodine with the additional benefits of many nutrients and trace elements.

Step 3
Dealing with the underlying toxicity
We have complete information on dealing with heavy metal toxicity etc. in our separate articlehere
In brief, this article suggests the use of some of the remedies you will already be using at this point with one additional remedy/supplement:-
Deep Cell Detox is a combination remedy, consisting of Seagreens, MSM, Alpha Lipoic Acid and Acetyl L Carnitine.
Note: Remember to continue with the Step 1 remedies throughout this step and the Iodine from Step 2
Step 4
Normalising and supporting the immune system
Research suggests that the three most important, identifiable, components for immune system integrity are Vitamin D, Iodine and Vitamin C. It is commonly believed, by researchers, that deficiencies in these three immune system essentials are widespread, to the point that the vast majority of people living in northern climates are significantly deficient. In addition, Zell Immunocomplex is an essential broad-acting nutritional remedy for rapidly creating a competent immune system. Seagreens is a useful but non-essential add on to the protocol at this point. It can be introduced to either replace or supplement the Iodine.
By the end of Step 3 you will already be using all 4 of these supplements. At this point, these 4 are all you need, however for continuing improvements to your overall health we would suggest that as a minimum you adopt the Core Regime Essentials, better still the full Core Regime
Why is my therapy not working?
If the remedies of choice are not working for you, then there could be an underlying hormonal balance issue preventing your health improvement; a fundamental problem that needs resolution before you can progress further. This is the matter of Low Metabolic Energy. Please look at the summary chart below, is any of this familiar? if so, please view our excellent resource to determine the extent to which an individuals health issues may relate to adrenal problems, thyroid problems or a combination of both. Please click here to view the article.

Symptoms of Low Metabolic Energy


Low body temperature. Coldness. Low Energy or Fatigue. Weight problems (can't lose or gain it). Slow healing .


Depression. Anxiety. Poor memory, focus, or concentration. Sleep disorders.

Immune system

Under-Reactiveor Over-Reactive: Frequent infections (skin, sinus, bladder, bowel, yeast problems, etc.). Allergies. Auto-immune disease.


Fatigue. Fibromyalgia (muscle or joint pains). Generalized aches/pains. Repetitive use injury and carpal tunnel syndrome. Weak connective tissues (ligaments, bones, etc). Headaches.


Loss of Libido and function. Menstrual disorders. Infertility.


Low blood pressure. High blood pressure. Raynaudís disease.


Constipation. Gas or bloating. Digestive disorders, Irritable Bowel Syndrome (IBS)

Nervous system

Numbness of hands and/or feet (usually symmetrical). Dulling or loss of senses such as vision, taste or smell.


Dry. Acne. Pallor in light skin, darkening or dark patches in dark skin.


Hair loss, brittle, coarse, dry or oily.



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Disclaimer: Regenerative Nutrition advocates a holistic approach to natural health and wellbeing. The body's ability and power to heal depends upon the totality of diet, nutrition, lifestyle and environmental factors. The information provided in our article is for information purposes only, it in no way constitutes a medical consultation, or medical advice, nor is it intended to be taken as a solicitation to purchase our products.

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