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Systems Biology Protocol Library
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Patient Clinician Technical
The Disease Model
Protocol
Getting Started NotebookLM AI Assistance Single Page View (for printing / PDF)
Tools
Meal Planner Electrolyte Calculator Find an Oligoscan Practitioner Oligoscan PDF Processor Universal OAT Tool Metabolic Pathway Overlay Biomesight Analysis Antimicrobial Library
Videos
Theme
Contents
1 Overview
1.1 Summary
1.2 Disclaimer
1.3 Contents
1.4 Introduction
2 The protocol
↳ Severe neuropsych onboarding
↳ Getting started
2.1 Collect your data
2.1.1 Blood tests
2.1.2 Intracellular minerals
2.1.3 Organic Acids Test (OAT)
2.1.4 Cronometer
2.1.5 Microbiome testing
↳ Fermenting species identification
2.2 Lifestyle changes
2.2.1 Diet
↳ Feeding energy pathways
↳ Standard mixed diets vs ketogenic diets
↳ Active Vitamin A deficiency
↳ Vitamin Q deficiency
↳ Strategic eating
2.2.2 Lymphatic maintenance
2.2.3 Living without chronic dysbiosis
↳ Nasopharynx
↳ Gastrointestinal biofilms and pathogens
↳ Mammary glands, lactiferous ducts
↳ Parasites
↳ Glycocalyx
↳ Interventions
↳ Binders
↳ Bacteriophages
↳ DIY antiseptic recipe
↳ Biofilm breakers
↳ Protective probiotics
↳ Prebiotics
↳ Herbal anti-microbials
↳ Prescription anti-microbials
↳ Environment
2.2.4 The importance of “pacing”
↳ Acidaemia: a key influence in disease progression
↳ NADPH: a reductive "currency", powered by TCA cycle flux
2.2.5 Structural issues
2.2.6 Cortisol, limbic system, glycogen and IFN-γ
↳ Histamine triggers glycogen redistribution
↳ Sympathetic overdrive
↳ Anxiety, isolation, and phobia
2.2.7 Reproductive health, menstrual cycles, UTIs and PSSD
2.2.8 Sleep
2.2.9 PEM prevention and recovery
2.3 Daily schedule
↳ 2.3A Alternative – [no compounded nutrients]
↳ 2.3B Alternative – [no DIY shake]
↳ 2.3C Alternative – [no DIY shake or compounded nutrients]
↳ 2.3D Starter Schedule [compounded nutrients]
↳ 2.3E Starter Schedule [without compounded nutrients]
2.3.1 Herxheimer / die-off / acetaldehyde support
↳ Methylene Blue - "A lifeguard for the NAD+ pool"
2.3.2 Remineralisation
↳ Toxic metals chelation
2.3.3 Blood-flow, hypoxia and fibrin-amyloid
2.3.4 Rapid withdrawal, hypo/hypermetabolism
2.4 Optional follow-up
2.5 Ongoing preventative maintenance
3 Rationale for protocol inclusions and general notes
4 Calculating supplement doses
4.1 Electrolytes
4.2 Compounded nutrients
4.3 DIY powder
5 Ordering supplements
5.1 Bacteriophage lookup
6 FAQ
7 Changelog
8 References
Protocol Tools
Meal Planner Electrolyte Calculator Find an Oligoscan Practitioner Oligoscan PDF Processor Universal OAT Tool Metabolic Pathway Overlay Biomesight Analysis Antimicrobial Library
The Disease Model
Protocol
Getting Started NotebookLM AI Assistance Single Page View (for printing / PDF)
Tools
Meal Planner Electrolyte Calculator Find an Oligoscan Practitioner Oligoscan PDF Processor Universal OAT Tool Metabolic Pathway Overlay Biomesight Analysis Antimicrobial Library
Videos
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