The limits are published alongside the reasoning.
- Evidence tiers
Every article carries an explicit evidence tier, so established biology is never presented as if it were clinical proof.
Read the claim ledger - What this does not prove
Mechanistic pieces are required to state their own limits and the competing explanations that would fit the same data.
See the counterarguments - Published corrections
Where the reasoning has been revised, the revision is recorded rather than quietly edited away.
Review the standards
Pick the sentence that sounds like your situation.
- Why does my SIBO keep coming back?
- Are SIBO breath tests actually reliable?
- Why don't antihistamines settle my symptoms?
- Can I have mast cell activation with normal tryptase?
- Why won't my Long COVID symptoms resolve?
- Why did COVID trigger this in me and not others?
- Why are my labs normal when I feel terrible?
- Why doesn't my stool test match my symptoms?
- Why does every protocol stop working after two weeks?
- Why did butyrate or probiotics make me worse?
- What do bile acids have to do with my gut symptoms?
- Can gut health affect my hormones and egg quality?
Educational mechanistic writing. It does not diagnose, and it does not replace the clinician treating you.
Seven mechanistic threads run through this library.
Recurrent SIBO & breath-test interpretation
14 articles · recurrent SIBO
Mast-cell activation, tryptase & histamine
19 articles · mast cell activation
Long COVID, post-viral gut–immune & POTS
13 articles · Long COVID gut symptoms
Colonocyte bioenergetics, butyrate & oxygen
19 articles · colonocyte bioenergetics
Bile acids, TUDCA & C. difficile ecology
5 articles · bile acid dysfunction
Gut–hormone axis, fertility & estrobolome
3 articles · gut microbiome and fertility
Lab-pattern interpretation
6 articles · lab pattern interpretation
4 articles
- Frameworks· May 29, 2026· 21 min· HCM interpretation
What May Be Driving IBD? A Mechanistic Reading of Crohn's Disease and Ulcerative Colitis
IBD is not a single autoimmune disease. At the cellular level both Crohn's and ulcerative colitis are dominated by colonocyte bioenergetic failure — loss of butyrate oxidation, collapse of the gut oxygen gradient, and the inflammatory cascade that follows. A mechanistic reading anchored in primary research from Roediger 1990 onward, and why standard immunosuppression contains the response but does not restore the upstream lesion.
#ibd#crohns-disease#ulcerative-colitis - SIBO· May 25, 2026· 16 min· Mechanistic inference
Why Does SIBO Keep Coming Back After Treatment?
Recurrent SIBO may represent an equilibrium state of an unaddressed host substrate failure. Antimicrobials reduce overgrowth without restoring the colonocyte bioenergetic capacity that defines which microbes can dominate. A Host Capacity Model reading of the recurrence cycle, the SLC5A8 / Fe-S / CD38-NAD+-SIRT3 mechanisms behind it, and what an HCM-anchored approach actually looks like.
#sibo#recurrent-sibo#host-capacity-model - Host Capacity Model· May 14, 2026· 12 min· Mechanistic inference
The Mycotoxin-Mitochondria Trap: Why Standard Detox Fails in Chronic Illness, and How to Escape It
Mycotoxins directly impair mitochondrial function and disrupt the gut oxygen gradient, creating a bioenergetic trap that binders alone cannot break. A Host Capacity Model interpretation of why standard detox protocols fail in SIBO, MCAS, and long COVID, and what the upstream lesion actually requires.
#mycotoxins#mitochondria#colonocyte-bioenergetics - Host Capacity Model· May 14, 2026· 14 min· Mechanistic inference
Beyond Weight Loss: How GLP-1 Agonists Influence Gut Bioenergetics and the Host Capacity Model
Emerging research suggests GLP-1 receptor agonists do more than regulate glucose and appetite. They also influence colonocyte mitochondrial function, the gut oxygen gradient, the microbiome, and barrier integrity, with direct relevance to the Host Capacity Model.
#glp-1#semaglutide#colonocyte-bioenergetics
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