98 — Scientific References & Literature Index
Mirrored Reference Architecture
This silo mirrors the exact structure of primary silos 01–05. Every topic note in the vault has a corresponding
<Topic Name> - Referencesdossier containing peer-reviewed studies (with preserved rawPMID/DOI/PMCIDidentifiers + one-click direct access links to PubMed, Europe PMC, DOI.org, Anna’s Archive SciDB, and Google Scholar), study designs, sample sizes, effect sizes, and evidence tiers.
- Upward Link: 00 - Biohacking Index
- Trust & Citation Verification Audit (309/309 PMIDs Verified): Evidence Verification & Epistemic Hygiene Guide
graph LR R98["98 - References MOC"] --> R01["01 - Foundations References MOC"] R98 --> R02["02 - Compounds & Molecules References MOC"] R98 --> R03["03 - Diagnostics & Quantified Self References MOC"] R98 --> R04["04 - Longevity & Environment References MOC"] R01 -.->|"Mirrors"| S01["01 - Foundations MOC"] R02 -.->|"Mirrors"| S02["02 - Compounds & Molecules MOC"] R03 -.->|"Mirrors"| S03["03 - Diagnostics & Quantified Self MOC"] R04 -.->|"Mirrors"| S04["04 - Longevity & Environment MOC"]
Mirrored Reference Silos
0. [[Imported Readings & Synopses MOC|98.00 — Imported Readings & Paper Synopses (import/ Drop Folder)]]
Full-text scientific papers and personal reference texts ingested from d:\AI\biohacking\import, with embedded PDFs and cross-silo synopses.
1. 98.01 — Foundations References
Mirrors 01 - Foundations MOC:
- 1.1 Sleep & Circadian Biology: Sleep Architecture - References · Circadian Entrainment & Zeitgebers - References · Chronotypes & Melatonin Dynamics - References · Sleep Environment & Hygiene - References · Sleep Supplementation & Pharmacology - References
- 1.2 Nutrition & Metabolic Health: Metabolic Flexibility & Insulin Sensitivity - References · Time-Restricted Feeding & Fasting - References · Macronutrient & Micronutrient Optimization - References · Mitochondrial Energetics - References · Hydration & Electrolytes - References
- 1.3 Exercise & Physical Performance: Zone 2 & VO2 Max - References · Resistance Training & Hypertrophy - References · Recovery & Supercompensation - References · Mobility & Fascia - References
- 1.4 Nervous System & Autonomic Regulation: Vagal Tone & HRV Regulation - References · Breathwork Protocols - References · HPA Axis & Cortisol Modulation - References · NSDR & Neuroplasticity - References
2. 98.02 — Compounds & Molecules References
Mirrors 02 - Compounds & Molecules MOC:
- 2.1 Foundational Supplements & Micronutrients: Magnesium Forms & Bioavailability - References · Vitamin D3, K2 & Calcium Homeostasis - References · Omega-3 & Lipid Membrane Health - References · Methylation & B-Complex - References · Creatine & Phosphocreatine System - References · Amino Acids & Precursors - References
- 2.2 Nootropics & Neurochemistry: Cholinergics (Alpha-GPC, Citicoline) - References · Racetams & AMPAkines - References · Dopaminergics & Catecholamines - References · Adaptogens - References · Neurotrophins (BDNF, NGF, Lion’s Mane) - References · GABAergics & Anxiolytics - References
- 2.3 Peptides & Bioregulators: Tissue Repair Peptides (BPC-157, TB-500, GHK-Cu) - References · GH Secretagogues (Ipamorelin, CJC-1295, Tesamorelin) - References · Cognitive & Neurogenic Peptides (Semax, Selank, Dihexa) - References · Mitochondrial & Metabolic Peptides (MOTS-c, SS-31, GLP-1) - References · Khavinson Bioregulators (Epitalon, Pinealon) - References · Immune & Thymic Peptides (Thymosin Alpha-1, LL-37) - References
- 2.4 Longevity & Repurposed Pharmacology: mTOR & Autophagy Modulators (Rapamycin) - References · AMPK & Glycemic Agents (Metformin, Berberine, Acarbose) - References · PDE5 Inhibitors & Endothelial Function - References · Methylene Blue & Electron Transport Chain - References
3. 98.03 — Diagnostics & Quantified Self References
Mirrors 03 - Diagnostics & Quantified Self MOC:
- 3.1 Bloodwork & Systemic Biomarkers: Cardiometabolic Panel (ApoB, Lp(a), HbA1c, Fasting Insulin) - References · Inflammation & Oxidative Stress (hs-CRP, Homocysteine, GGT) - References · Endocrine & Hormone Panel - References · Thyroid Panel - References · Hematology, Iron & Nutrient Panel - References · Hepatic & Renal Function (Cystatin C, eGFR) - References
- 3.2 Genetics, Epigenetics & Multi-Omics: Methylation & Detox SNPs (MTHFR, COMT, GST) - References · Lipid & Longevity Variants (APOE, FOXO3) - References · Neurotransmitter & Circadian Variants - References · Epigenetic Clocks (DunedinPACE, Horvath, GrimAge) - References · Telomere & Biological Age Testing - References
- 3.3 Gut Microbiome & GI Diagnostics: Microbiome Diversity & Keystone Species - References · Intestinal Permeability & Zonulin - References · SCFAs (Butyrate, Propionate, Acetate) - References · SIBO, Dysbiosis & Organic Acids Test (OAT) - References
- 3.4 Wearables & Continuous Biometrics: Continuous Glucose Monitoring (CGM) & Glycemic Variability - References · HRV, RHR & Autonomic Readiness - References · Sleep Staging & Actigraphy - References · Body Composition (DEXA, Visceral Fat) - References · Blood Pressure & Pulse Wave Velocity - References
4. 98.04 — Longevity & Environment References
Mirrors 04 - Longevity & Environment MOC:
- 4.1 Cellular Health, NAD+ & Hallmarks of Aging: NAD+ Salvage Pathway (NMN, NR, CD38 Inhibition) - References · Cellular Senescence & Senolytics (Fisetin, Quercetin, Dasatinib) - References · Autophagy & Mitophagy (Spermidine, Urolithin A) - References · Mitochondrial Biogenesis & Uncoupling - References · Glycation & AGEs Inhibition (Carnosine, Benfotiamine) - References
- 4.2 Photobiomodulation & Light Environment: Red & Near-Infrared Light Therapy (660nm, 850nm) - References · Circadian Lighting & Melanopic Lux - References · UV Exposure, Nitric Oxide & Photobiology - References · Blue Light Mitigation & Retinal Health - References
- 4.3 Thermal Hormesis (Heat & Cold): Sauna Protocols & Heat Shock Proteins - References · Cold Plunge, Norepinephrine & Brown Adipose Tissue - References · Contrast Therapy & Vascular Conditioning - References
- 4.4 Environment & Toxin Mitigation: Water Filtration, Remineralization & Hydrogen - References · Indoor Air Quality (PM2.5, CO2, VOCs, HEPA) - References · Heavy Metals, Microplastics & Endocrine Disruptors (PFAS, BPA) - References · Detoxification Pathways (Phase I-III, Glutathione, Binders) - References
5. 98.05 — Runbooks & Field Protocols References
Mirrors 05 - Runbooks & Field Protocols MOC (Interoception, Cranial Nerve / Polyvagal Coupling, Physiological Sigh, Trigeminal Mammalian Dive Reflex, Cold Shock Habituation & Post-Sauna Parasympathetic Rebound).