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
13 articles · showing 12
- Host Capacity Model· August 12, 2026· 20 min· Mechanistic inference
Mold, Mycotoxins, SIBO, and Chronic Illness: How Enteric Nervous System Dysfunction and Loss of Host Capacity Create a Self-Reinforcing Biological Loop
How mycotoxin exposure, enteric nervous system dysfunction and loss of host capacity can form a self-reinforcing loop behind recurrent SIBO, methanogen overgrowth and severe constipation.
#mold#mycotoxins#sibo - MCAS & Mast Cells· August 6, 2026· 4 min· Mechanistic inference
Your Mast Cells May Be Reacting to a Gut That Never Stopped Signaling Danger
Mast cells rarely become reactive without an input. A short reading of the gut-derived signalling that keeps them primed, and why that reframes mast-cell symptoms as downstream rather than primary.
#mast-cells#mcas#dysbiosis - Frameworks· July 30, 2026· 11 min· HCM interpretation
SIBO, MCAS, POTS and Food Intolerance May Be One Self-Sustaining System
For years, SIBO, MCAS, POTS, dysautonomia, food intolerance, chronic fatigue, neurological symptoms, and mitochondrial dysfunction have been treated as separate diagnoses.
#sibo#mcas#pots - MCAS & Mast Cells· July 17, 2026· 28 min· Mechanistic inference
Rethinking Chronic Dysbiosis, Mast Cell Activation, and the Failure of Intestinal Ecological Control
Why the microbiome may remain unstable until the intestinal epithelium regains the capacity to metabolize microbial products, consume oxygen, regulate inflammation, and rebuild itself
#dysbiosis#mast-cells#mcas - MCAS & Mast Cells· June 9, 2026· 13 min· Mechanistic inference
Why Mast Cell Activation May Be the Last Domino, Not the First — A Systems-Biology Reframe of MCAS
For decades, the mast cell has carried a reputation it may not fully deserve. We learned it as the cell of allergy: the histamine grenade, the hive, the wheeze, the anaphylactic emergency. In that framing, Mast Cell Activation Syndrome (MCAS) becomes a straightforward story —…
#mcas#mast-cells#systems-biology - Frameworks· June 1, 2026· 22 min· HCM interpretation
What May Be Driving Fibromyalgia? The Mitochondrial, Mast Cell, and Small Fiber Neuropathy Mechanisms Standard Treatment Misses
Fibromyalgia has four upstream drivers: mitochondrial dysfunction, mast cell activation, small fiber neuropathy, and gut-brain axis dysfunction. Lyrica and Cymbalta act on central amplification, not on the peripheral lesions producing the input — which is why response is so often partial.
#fibromyalgia#chronic-pain#mitochondrial-dysfunction - Frameworks· May 31, 2026· 22 min· HCM interpretation
What May Be Driving Chronic Migraine? A Mechanistic Reading of Treatment-Resistant Migraine
Chronic migraine has four upstream drivers: mitochondrial bioenergetic failure, dural mast cell activation, gut-brain axis dysfunction, and hormonal-vasomotor instability. Most treatment-resistant cases (including CGRP antibody non-responders) need the dominant driver addressed at its upstream point.
#chronic-migraine#migraine#cgrp - Fertility· May 30, 2026· 21 min· Mechanistic inference
Why Does Endometriosis Come Back After Surgery? The Gut, Estrobolome, and Bioenergetic Mechanism
Endometriosis recurs because excision removes lesions but not the substrate that selected for them. A mechanistic reading of the gut estrobolome, beta-glucuronidase-driven estrogen recirculation, LPS-driven inflammation, pelvic mast cell infiltration, mitochondrial dysfunction, and iron-driven oxidative damage — and why surgery and hormonal suppression contain the disease but rarely resolve it.
#endometriosis#endometriosis-recurrence#estrobolome - MCAS & Mast Cells· May 26, 2026· 18 min· Mechanistic inference
Why Does MCAS Not Respond to Standard Treatment? The Four Mechanistically Distinct Patterns
Treatment-resistant MCAS may, in a subset of people, be a stratification problem rather than a stabilization problem. At least four candidate mechanistic patterns can contribute to the MCAS phenotype — barrier-driven, neuroimmune/vagal, chemical/toxicant, and clonal/KIT-driven — and they require different upstream interventions. A Host Capacity Model reading of why cromolyn, ketotifen, and the standard stack fail, and what stratification-anchored care looks like.
#mcas#mast-cell-activation-syndrome#treatment-resistant-mcas - MCAS & Mast Cells· May 22, 2026· 3 min· Mechanistic inference
Estrogen, Mast Cells, and Why Your Gut Symptoms Change Across Your Cycle
If you have a chronic gut condition — IBD, IBS, SIBO, MCAS, histamine intolerance, or some overlap of them — you have probably noticed something important: your symptoms are often not random.
#estrogen#mast-cells#histamine - MCAS & Mast Cells· May 14, 2026· 26 min· Mechanistic inference
Histamine Intolerance: Why the DAO Enzyme Story Is Incomplete, and the Real Reason Your Low Histamine Diet Stopped Working
What standard explanations miss about bacterial histamine, the second breakdown enzyme almost nobody discusses, and why mast cell driven reactivity sits on a layer none of these interventions reach.
#histamine#mcas#dao - MCAS & Mast Cells· April 11, 2026· 27 min· Mechanistic inference
Your Mast Cells Have a Mitochondrial Problem: The Genetic and Metabolic Layer Nobody Tested For
Mast cell degranulation is an energy-dependent event. A long-form look at the mitochondrial, genetic and metabolic layer that determines how easily a mast cell fires — and why it is rarely tested.
#mast-cells#mitochondria#mtdna
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