Mechanistic Intelligence Feed
Structural updates to BiomeLogic's knowledge graph: new claims, added evidence, registered contradictions, linked pathways, and concept- stability changes. Not news. Not commentary. Verified registry events only.
Recent updates
- ·Claim registered·strong-mechanistic-inference
Mechanistic Claim Verification Engine bootstrapped with 15 foundational claims
Initial claim registry covers colonocyte bioenergetics, oxygen-gradient failure, H₂S drivers, bile-acid restriction, LPS–TLR4 signalling, and the aromatase paradox, each labelled by evidence level and PMID-cited.
#host-capacity#claims#verificationAffects: concept:host-capacity-model, concept:colonocyte-bioenergetics, claim:host-capacity-model-thesis - ·Falsifiability recorded·mechanistic-inference
Falsifiability record added for the Host Capacity Model
Explicit supporting / weakening evidence and testable biomarkers are now published for HCM, alongside competing explanations such as primary-microbial-lesion models.
#host-capacity#falsifiabilityAffects: concept:host-capacity-model, claim:host-capacity-model-thesis - ·Contradiction updated·mechanistic-inference
Contradiction registered: dysbiosis as primary lesion vs. habitat adaptation
Two competing positions are now documented with supporting evidence, weakening evidence, and arbitrating experiments — rather than asserting a single answer.
#dysbiosis#ecology#contradictionAffects: contradiction:is-dysbiosis-primary-or-adaptive, concept:dysbiosis-ecology - ·Contradiction updated·mechanistic-inference
Butyrate paradox formally registered as a context-dependent contradiction
The position that exogenous butyrate can worsen symptoms in energy-failed epithelium is now tracked alongside the universally-beneficial position, with arbitrating predictions.
#butyrate#bioenergetics#contradictionAffects: contradiction:is-butyrate-always-therapeutic, claim:exogenous-butyrate-can-worsen-symptoms-in-energy-failed-epithelium, concept:butyrate-oxidation - ·Contradiction updated·emerging
MCAS-as-primary vs. MCAS-as-amplification contradiction documented
Competing positions on whether mast-cell activation is the candidate upstream mechanism or a downstream amplifier of barrier and bioenergetic stress are now tracked.
#mcas#mast-cells#contradictionAffects: contradiction:is-mcas-primary-or-amplification, concept:mcas-histamine-patterns - ·Pathway linked·strong-mechanistic-inference
Oxygen-leak cascade chain linked across butyrate → β-oxidation → nitrate respiration → barrier
The canonical HCM causal chain is now machine-readable with per-step evidence levels and backing claim IDs.
#oxygen-gradient#bioenergetics#ecologyAffects: chain:oxygen-leak-cascade, concept:oxygen-gradient-failure, concept:nitrate-respiration, concept:gut-barrier-dysfunction - ·Pathway linked·established
Bile-acid → proximal-overgrowth chain documented
Conjugated bile acid restriction of small-bowel overgrowth is now linked to bile-acid dysfunction and SIBO under the host-capacity framing.
#bile-acids#siboAffects: chain:bile-acid-proximal-overgrowth, concept:bile-acid-dysfunction, claim:conjugated-bile-acids-restrict-small-bowel-overgrowth - ·Relationship added·strong-mechanistic-inference
State map: epithelial energy failure linked to oxygen-leak and sulfide-overload states
The chronic / collapse phases of colonocyte mitochondrial throughput failure are now tied into adjacent state maps and the H₂S chain.
#bioenergetics#epithelium#statesAffects: state:epithelial-energy-failure, state:oxygen-leak, state:sulfide-overload - ·Relationship added·mechanistic-inference
Recovery trajectory state map registered
A recovery-phase state is now tracked alongside the failure states, capturing the order in which bioenergetic capacity, oxygen gradient, and ecology re-stabilise.
#recovery#host-capacityAffects: state:recovery-trajectory, concept:host-capacity-model - ·Evidence added·emerging
Citation added: SIBO breath-test specificity is poor under standard cutoffs
The breath-test specificity claim is now explicitly tied to the breath-test contradiction registry, with peer-reviewed citation.
#sibo#diagnosticsAffects: claim:sibo-breath-tests-have-poor-specificity, contradiction:are-sibo-breath-tests-valid - ·Evidence added·mechanistic-inference
LPS-TLR4 suppression of granulosa aromatase added as mechanistic-inference claim
The aromatase paradox chain (gut-derived LPS → granulosa TLR4 → aromatase suppression) is now formally linked into the claim registry.
#lps#aromatase#ovarianAffects: claim:lps-tlr4-suppresses-granulosa-aromatase, chain:lps-aromatase-paradox - ·Model revised
Public knowledge API v1 published
Concepts, articles, mechanism graph, claims, contradictions, chains, and state maps are now exposed under a stable /api/public/v1/* contract for AI retrieval systems.
#api#retrieval#infrastructureAffects: concept:host-capacity-model - ·Model revised
Living Mechanistic Intelligence Layer activated
Concept stability index, revision feed, and intelligence APIs are now live. Each concept now carries a deterministic stability rating derived from claim evidence levels, contradiction load, and revision recency.
#intelligence#stability#infrastructureAffects: concept:host-capacity-model, concept:colonocyte-bioenergetics, concept:oxygen-gradient-failure
Concept stability index
Deterministic ratings derived from claim evidence levels, contradiction load, and revision recency. Conservative by design.
- The Host Capacity ModelEvolving
- Colonocyte BioenergeticsEvolving
- Butyrate OxidationEvolving
- Oxygen Gradient FailureEvolving
- Gut Barrier DysfunctionHighly established
- Dysbiosis as Ecological AdaptationEvolving
- Nitrate RespirationHighly established
- Mitochondrial DysfunctionHighly established
- Bile Acid DysfunctionHighly established
- MCAS and Histamine PatternsEvolving
- SIBO Through the Host Capacity ModelEvolving
/api/public/v1/intelligence/feed/api/public/v1/intelligence/stability/api/public/v1/intelligence/momentum/api/public/v1/intelligence/revisions/{id}/api/public/v1/intelligence/concept-updates/{slug}/feed-intelligence.xml(Atom)