Autoimmune Gut-Support Protocol (5R Framework)
Dr. Mark Hyman's 5R gut-repair framework applied to autoimmune support (remove, replace, reinoculate, repair, rebalance), as a complement to standard rheumatology or specialist care, not a cure.
Based on The Dr. Hyman Show ep1038 (June 2025) with Dr. Elizabeth Boham and Raja Dhir of Seed Health. The 5R framework aims to support gut-immune health. This is offered as gut-health support, not a treatment for autoimmune disease.
Why it works▼
Eliminate common inflammatory triggers (gluten, dairy, ultra-processed food) for a defined trial, then reintroduce one at a time
Identify individual triggers.
Add digestive enzyme support with meals if needed
Supports digestion during repair.
Eat colorful polyphenol-rich plants plus a multi-strain probiotic and fermented foods
Supports a diverse microbiome.
Support the gut barrier with glutamine, zinc and vitamin A
Nutrients involved in intestinal barrier integrity.
Manage stress (meditation, breathwork) and protect sleep
Supports the parasympathetic nervous system and gut-immune axis.
Use this alongside, never instead of, your specialist's care
This does not reverse or cure autoimmune disease.
- People with autoimmune conditions wanting gut-health support alongside specialist care
- Anyone interested in the evidence-honest version of the gut-immune connection
- Not a treatment or a way to reverse autoimmune disease
- This is informational gut-health support alongside, never instead of, care from a rheumatologist or your treating specialist; it is not a treatment and does not reverse or cure autoimmune disease
- Do not stop, taper or change any immunosuppressant or disease-modifying medication based on this content; that decision belongs to your specialist
- Supplements and lab testing Dr. Hyman references may be available through businesses he has a commercial interest in
- If you have a diagnosed autoimmune condition, work with your care team before starting any elimination diet
- Gut-immune crosstalk is a real area of research; claims that fixing the gut alone reverses autoimmune disease go beyond current evidence
- Educational only, not medical advice
- July 3, 2026 Protocol published.
New expert protocols and evidence updates, cited to the source. No spam; unsubscribe anytime.
Not medical advice. This page is for education only and is not a substitute for professional medical care. Consult a qualified clinician before changing your health routine.
Independent curation. YourProtocol.ai is an independent platform. This protocol is based on the publicly available work of Mark Hyman and is not created, reviewed, endorsed by, or affiliated with Mark Hyman or Functional Medicine Physician · The Doctor's Farmacy.