The Autoimmune Protocol (AIP) Diet: Eliminating Molecular Mimicry

Reviewed by Integrative Medicine & Clinical Nutrition Faculty Board

Clinical Overview

Nutrient-dense elimination protocol: removing nightshades, grains, legumes, dairy, and eggs to downregulate autoimmune antibody titers and calm inflammation.

The Autoimmune Protocol (AIP) is an evidence-based clinical elimination and reintroduction diet designed to reduce intestinal hyperpermeability and systemic immune reactivity.

1. Elimination and Reintroduction Phases

  • Elimination (30–90 Days): Complete removal of pro-inflammatory lectins, saponins, capsaicins, grains, dairy, nightshades (tomatoes, peppers, eggplant), and industrial seed oils.
  • Nutrient Density Focus: Prioritizing organ meats, wild-caught fatty fish, bone broth, and polyphenol-rich vegetables.
  • Systematic Reintroduction: Testing one food group every 5–7 days while monitoring for fatigue, joint aches, or skin flares.
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Integrative Medicine & Clinical Nutrition Faculty Board

Our clinical faculty specializes in functional endocrinology, GI-MAP microbiome restoration, advanced lipidology (ApoB/Lp(a)), and cellular longevity medicine.

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