nutrigenetics_cli.go

package main

import (
	"bufio"
	"fmt"
	"os"
	"sort"
	"strings"
)

const (
	ColorReset  = "\033[0m"
	ColorRed    = "\033[31m"
	ColorGreen  = "\033[32m"
	ColorYellow = "\033[33m"
)

// Proxy defines a fallback SNP for the v5 chip
type Proxy struct {
	RSID       string
	RiskAllele string
	Priority   int
}

// RiskMarker defines the metadata and nutritional logic for a specific SNP
type RiskMarker struct {
	RSID           string
	Gene           string
	Area           string
	RiskAllele     string // Aligned to Forward (+) Strand for 23andMe v5
	Description    string
	RiskAdvice     string // Recommendation if risk is found
	BaselineAdvice string // Recommendation if genotype is normal
	Proxies        []Proxy
}

// CategoryScore tracks the cumulative risk per metabolic module
type CategoryScore struct {
	Name         string
	Score        float64
	MarkersFound int
}

// ResultRow stores findings for the final display
type ResultRow struct {
	Marker         RiskMarker
	Genotype       string
	Impact         string
	Recommendation string
	UsedProxy      bool
	ProxyRSID      string
	MatchPriority  int
}

func main() {
	if len(os.Args) < 2 {
		fmt.Println("Usage: go run nutrigenetics_cli.go <path_to_23andme_v5.txt>")
		return
	}

	filePath := os.Args[1]

	// -------------------------------------------------------------------------
	// NUTRIGENETICS DATABASE (Validated for Forward Strand Orientations)
	// -------------------------------------------------------------------------
	markers := map[string]RiskMarker{
		// --- MODULE A: METHYLATION & TRANSSULFURATION ---
		"rs1051266": {
			RSID: "rs1051266", Gene: "SLC19A1", Area: "Methylation", RiskAllele: "T",
			Description:    "RFC1: Reduced Folate Carrier (A80G).",
			RiskAdvice:     "Impaired transport of folate into cells. Keep blood folate high normal.",
			BaselineAdvice: "Cellular folate transport is efficient.",
		},
		"rs1801133": {
			RSID: "rs1801133", Gene: "MTHFR", Area: "Methylation", RiskAllele: "A",
			Description:    "C677T: Reduced folate conversion (A on Forward Strand).",
			RiskAdvice:     "Use L-5-MTHF (Active Folate) & Riboflavin (B2). Avoid synthetic Folic Acid.",
			BaselineAdvice: "Methylation efficiency likely normal. Standard dietary folate sufficient.",
		},
		"rs1801131": {
			RSID: "rs1801131", Gene: "MTHFR", Area: "Methylation", RiskAllele: "G",
			Description:    "A1298C: BH4/Neurotransmitter impact (G on Forward Strand).",
			RiskAdvice:     "Support BH4 with Methylfolate. Monitor neurotransmitter balance (Mood/Focus).",
			BaselineAdvice: "Folate cycle efficiency for BH4 recycling is likely normal.",
		},
		"rs1979277": {
			RSID: "rs1979277", Gene: "SHMT1", Area: "Methylation", RiskAllele: "T",
			Description:    "C1420T: Folate diversion for DNA synthesis vs Methylation.",
			RiskAdvice:     "Folate may be diverted from methylation. Ensure adequate Folate/B12 intake.",
			BaselineAdvice: "Folate pathway priority is balanced.",
		},
		"rs2236225": {
			RSID: "rs2236225", Gene: "MTHFD1", Area: "Methylation", RiskAllele: "A",
			Description:    "G1958A: Folate cycle impairment & Choline risk.",
			RiskAdvice:     "Increased demand for Choline to back up the folate cycle.",
			BaselineAdvice: "Folate enzyme function normal.",
		},
		"rs1805087": {
			RSID: "rs1805087", Gene: "MTR", Area: "Methylation", RiskAllele: "G",
			Description:    "A2756G: High B12 turnover.",
			RiskAdvice:     "Requires high functional B12 (Methylcobalamin) due to high turnover rate.",
			BaselineAdvice: "B12 recycling efficiency appears normal.",
		},
		"rs1801394": {
			RSID: "rs1801394", Gene: "MTRR", Area: "Methylation", RiskAllele: "G",
			Description:    "A66G: Reduced B12 recycling.",
			RiskAdvice:     "Support with B12 (Adenosyl/Methyl mix) to assist recycling loop.",
			BaselineAdvice: "Enzyme function for B12 maintenance is likely optimal.",
		},
		"rs617219": {
			RSID: "rs617219", Gene: "GNMT", Area: "Methylation", RiskAllele: "C",
			Description:    "Methylation balance (SAMe regulation).",
			RiskAdvice:     "May have difficulty regulating SAMe levels. Avoid excessive methionine.",
			BaselineAdvice: "SAMe regulation appears normal.",
			Proxies: []Proxy{
				{RSID: "rs10948059", RiskAllele: "C", Priority: 2}, // v5 Proxy
				{RSID: "rs4613", RiskAllele: "T", Priority: 3},     // High Priority v5
				{RSID: "rs10948060", RiskAllele: "A", Priority: 4}, // Alternative v5
				{RSID: "rs9462856", RiskAllele: "T", Priority: 5},  // v5 chr6 proxy (T risk assumption)
				{RSID: "rs16896177", RiskAllele: "T", Priority: 6}, // v5 chr6 proxy
			},
		},
		"rs3741049": {
			RSID: "rs3741049", Gene: "BHMT", Area: "Methylation", RiskAllele: "A",
			Description:    "R239Q: Homocysteine 'Short Cut' (Often labeled ACAT1-02).",
			RiskAdvice:     "Support the 'short-cut' pathway with TMG (Betaine) & Choline.",
			BaselineAdvice: "Betaine-dependent homocysteine remethylation is efficient.",
			Proxies: []Proxy{
				{RSID: "rs567754", RiskAllele: "T", Priority: 2}, // v5 Proxy
			},
		},
		"rs234706": {
			RSID: "rs234706", Gene: "CBS", Area: "Methylation", RiskAllele: "A",
			Description:    "C699T: CBS Upregulation (T allele = A Forward).",
			RiskAdvice:     "Upregulated enzyme drains methyl groups. Limit high-sulfur foods. Supplement Molybdenum.",
			BaselineAdvice: "Transsulfuration pathway speed is normal.",
		},
		"rs819147": {
			RSID: "rs819147", Gene: "AHCY", Area: "Methylation", RiskAllele: "C",
			Description:    "SAH Hydrolase efficiency.",
			RiskAdvice:     "Inefficient clearance of SAH (inhibitor). Regulate protein intake.",
			BaselineAdvice: "SAH clearance is optimal.",
			Proxies: []Proxy{
				{RSID: "rs41312290", RiskAllele: "C", Priority: 2},
				{RSID: "rs13043906", RiskAllele: "T", Priority: 3}, // v5 Proxy
				{RSID: "rs819145", RiskAllele: "C", Priority: 4},   // Deep Proxy
				{RSID: "rs819134", RiskAllele: "G", Priority: 5},   // Deep Proxy
				{RSID: "rs11905041", RiskAllele: "T", Priority: 6}, // v5 chr20 proxy (T risk assumption)
				{RSID: "rs9503", RiskAllele: "T", Priority: 7},     // v5 chr20 proxy
			},
		},
		"rs705343": {
			RSID: "rs705343", Gene: "SUOX", Area: "Methylation", RiskAllele: "A",
			Description:    "Sulfite Oxidase efficiency (Sulfur sensitivity).",
			RiskAdvice:     "Monitor sulfite intake (wine, dried fruit). Molybdenum is key cofactor.",
			BaselineAdvice: "Sulfite detoxification is likely efficient.",
			Proxies: []Proxy{
				{RSID: "rs1231629", RiskAllele: "G", Priority: 2},  // v5 Proxy
				{RSID: "rs773115", RiskAllele: "A", Priority: 3},   // Deep Proxy
				{RSID: "rs705700", RiskAllele: "C", Priority: 4},   // v5 chr12 proxy (C risk assumption)
				{RSID: "rs705702", RiskAllele: "T", Priority: 5},   // v5 chr12 proxy
				{RSID: "rs772922", RiskAllele: "T", Priority: 6},   // v5 chr12 proxy
				{RSID: "rs10876864", RiskAllele: "T", Priority: 7}, // v5 chr12 proxy
			},
		},

		// --- MODULE B: NEUROTRANSMITTER & BRAIN HEALTH ---
		"rs4680": {
			RSID: "rs4680", Gene: "COMT", Area: "Neurotransmitter", RiskAllele: "A",
			Description:    "Val158Met: Slow COMT (Worrier).",
			RiskAdvice:     "Avoid high-dose methyl donors. Magnesium is critical. Limit caffeine.",
			BaselineAdvice: "Dopamine clearance is efficient (Warrior/Fast-acting).",
		},
		"rs6323": {
			RSID: "rs6323", Gene: "MAO-A", Area: "Neurotransmitter", RiskAllele: "T",
			Description:    "R297R: Low Activity (T allele).",
			RiskAdvice:     "Low activity: Monitor high-tyramine foods (aged cheese, wine) to avoid migraines.",
			BaselineAdvice: "Monoamine breakdown is optimal (High Activity).",
			Proxies: []Proxy{
				{RSID: "rs1137070", RiskAllele: "T", Priority: 2}, // T is associated with Low Activity
			},
		},
		"rs3027451": {
			RSID: "rs3027451", Gene: "MAO-B", Area: "Neurotransmitter", RiskAllele: "A",
			Description:    "Dopamine breakdown efficiency.",
			RiskAdvice:     "Altered dopamine breakdown. Monitor for focus/impulsivity issues.",
			BaselineAdvice: "MAO-B function likely normal.",
			Proxies: []Proxy{
				{RSID: "rs3027452", RiskAllele: "G", Priority: 2}, // v5 Proxy
				{RSID: "rs3027448", RiskAllele: "T", Priority: 3}, // Deep Proxy
			},
		},
		"rs3749032": {
			RSID: "rs3749032", Gene: "GAD1", Area: "Neurotransmitter", RiskAllele: "C",
			Description:    "Glutamate to GABA conversion defect (Risk Allele C).",
			RiskAdvice:     "Support with P5P (B6) and Magnesium. Avoid MSG/Excess glutamates.",
			BaselineAdvice: "GABA synthesis pathways likely sufficient.",
			Proxies: []Proxy{
				{RSID: "rs2241165", RiskAllele: "C", Priority: 2}, // LD Partner (Risk C)
				{RSID: "rs3749034", RiskAllele: "C", Priority: 3}, // LD Partner (Risk C)
			},
		},
		"rs11558538": {
			RSID: "rs11558538", Gene: "HNMT", Area: "Neurotransmitter", RiskAllele: "T",
			Description:    "Brain Histamine Clearance (T=Ile/Low Activity).",
			RiskAdvice:     "Slower brain histamine breakdown. May cause insomnia/anxiety. Avoid late-night histamine.",
			BaselineAdvice: "Central nervous system histamine clearance is efficient.",
			Proxies: []Proxy{
				{RSID: "rs11558539", RiskAllele: "T", Priority: 2}, // v5 Proxy
				{RSID: "rs1050969", RiskAllele: "T", Priority: 3},  // Deep Proxy
				{RSID: "rs1580111", RiskAllele: "T", Priority: 4},  // v5 chr2 proxy (T risk assumption)
				{RSID: "rs62168714", RiskAllele: "A", Priority: 5}, // v5 chr2 proxy
			},
		},
		"rs6265": {
			RSID: "rs6265", Gene: "BDNF", Area: "Neurotransmitter", RiskAllele: "A",
			Description:    "Brain-Derived Neurotrophic Factor (Val66Met).",
			RiskAdvice:     "Lower Neuroplasticity. Exercise is CRITICAL to boost BDNF. Manage stress actively.",
			BaselineAdvice: "BDNF secretion is optimal (Better short-term memory).",
		},
		"rs1800497": {
			RSID: "rs1800497", Gene: "DRD2", Area: "Neurotransmitter", RiskAllele: "T",
			Description:    "Taq1A: Dopamine Receptor Density (T = Low Receptors).",
			RiskAdvice:     "Reward Deficiency. Higher risk of sugar cravings/addiction. Support healthy dopamine.",
			BaselineAdvice: "Dopamine receptor density is normal.",
		},

		// --- MODULE C: DETOX & CELLULAR HEALTH ---
		"rs1695": {
			RSID: "rs1695", Gene: "GSTP1", Area: "Detoxification", RiskAllele: "G",
			Description:    "Reduced Phase II detoxification.",
			RiskAdvice:     "Upregulate with Sulforaphane. Prioritize organic produce.",
			BaselineAdvice: "Phase II toxin conjugation is likely efficient.",
		},
		"rs4880": {
			RSID: "rs4880", Gene: "SOD2", Area: "Detoxification", RiskAllele: "A",
			Description:    "Mitochondrial defense defect (Ala16Val, Val=T).",
			RiskAdvice:     "Ensure Manganese intake and high dietary antioxidants (Vit E, Berries).",
			BaselineAdvice: "Mitochondrial superoxide defense is normal.",
		},
		"rs1050450": {
			RSID: "rs1050450", Gene: "GPX1", Area: "Detoxification", RiskAllele: "T",
			Description:    "Reduced H2O2 scavenging (Pro198Leu, Leu=T).",
			RiskAdvice:     "Critical need for Selenium (1-2 Brazil nuts/day) to support glutathione peroxidase.",
			BaselineAdvice: "Peroxide scavenging capability is baseline.",
			Proxies: []Proxy{
				{RSID: "rs1800668", RiskAllele: "T", Priority: 2},
				{RSID: "rs3811699", RiskAllele: "G", Priority: 3},
				{RSID: "rs17650792", RiskAllele: "A", Priority: 4},
				{RSID: "rs3448", RiskAllele: "T", Priority: 5}, // v5 Proxy
			},
		},
		"rs1799983": {
			RSID: "rs1799983", Gene: "NOS3", Area: "Detoxification", RiskAllele: "T",
			Description:    "Glu298Asp: Nitric Oxide production (T=Asp).",
			RiskAdvice:     "Support blood flow with Nitrates (Beets/Arugula) and Citrulline.",
			BaselineAdvice: "Nitric oxide synthase function likely normal.",
			Proxies: []Proxy{
				{RSID: "rs2070744", RiskAllele: "C", Priority: 2}, // v5 Proxy (T-786C, C is risk)
				{RSID: "rs3918226", RiskAllele: "T", Priority: 3}, // Deep Proxy
				{RSID: "rs7830", RiskAllele: "C", Priority: 4},    // Deep Proxy
			},
		},

		// --- MODULE D: VITAMIN METABOLISM ---
		"rs4654748": {
			RSID: "rs4654748", Gene: "NBPF3 (ALPL)", Area: "Vitamin Metabolism", RiskAllele: "T",
			Description:    "Rapid B6 clearance (Low serum B6).",
			RiskAdvice:     "Body clears B6 rapidly. Critical cofactor for CBS/GAD1. Supplement P5P.",
			BaselineAdvice: "Vitamin B6 retention is likely normal.",
		},
		"rs12934922": {
			RSID: "rs12934922", Gene: "BCMO1", Area: "Vitamin Metabolism", RiskAllele: "T",
			Description:    "Poor Beta-Carotene conversion.",
			RiskAdvice:     "Requires pre-formed Vitamin A (Retinol) or Retinyl Palmitate.",
			BaselineAdvice: "Effective converter of plant-based carotenes to active Vitamin A.",
		},
		"rs2228570": {
			RSID: "rs2228570", Gene: "VDR (FokI)", Area: "Vitamin Metabolism", RiskAllele: "A",
			Description:    "FokI: Vitamin D receptor efficiency.",
			RiskAdvice:     "Aim for upper optimal blood range (60-80 ng/mL). Supplement D3 + K2.",
			BaselineAdvice: "Vitamin D receptor sensitivity is likely normal.",
			Proxies: []Proxy{
				{RSID: "rs1544410", RiskAllele: "A", Priority: 2},
			},
		},
		"rs731236": {
			RSID: "rs731236", Gene: "VDR (TaqI)", Area: "Vitamin Metabolism", RiskAllele: "C",
			Description:    "TaqI: Vitamin D receptor stability (t allele = C).",
			RiskAdvice:     "Secondary VDR impact. Reinforces need for optimal D3 levels.",
			BaselineAdvice: "VDR TaqI status is optimal.",
		},
		"rs33972313": {
			RSID: "rs33972313", Gene: "SLC23A1", Area: "Vitamin Metabolism", RiskAllele: "A",
			Description:    "Increased renal excretion of Vitamin C.",
			RiskAdvice:     "Require higher daily Vitamin C intake to maintain plasma saturation.",
			BaselineAdvice: "Vitamin C retention is likely normal.",
			Proxies: []Proxy{
				{RSID: "rs33972312", RiskAllele: "A", Priority: 2},
			},
		},
		"rs1801198": {
			RSID: "rs1801198", Gene: "TCN2", Area: "Vitamin Metabolism", RiskAllele: "G",
			Description:    "Pro259Arg: Transcobalamin II transport (G=Arg).",
			RiskAdvice:     "Low B12 transport efficiency. Keep blood B12 high (>600 pg/mL).",
			BaselineAdvice: "B12 cellular transport is efficient.",
			Proxies: []Proxy{
				{RSID: "rs9606756", RiskAllele: "G", Priority: 2}, // v5 Proxy
			},
		},

		// --- MODULE E: METABOLIC REGULATION ---
		"rs7946": {
			RSID: "rs7946", Gene: "PEMT", Area: "Metabolic", RiskAllele: "A",
			Description:    "Val54Met: Poor endogenous choline synthesis (G>A Forward).",
			RiskAdvice:     "High dietary Choline non-negotiable (Egg yolks, Liver, Lecithin).",
			BaselineAdvice: "Endogenous choline production is functional. Follow RDA.",
		},
		"rs12676": {
			RSID: "rs12676", Gene: "CHDH", Area: "Metabolic", RiskAllele: "T",
			Description:    "Choline Dehydrogenase deficiency.",
			RiskAdvice:     "Impaired Choline->Betaine conversion. Support with TMG.",
			BaselineAdvice: "Choline oxidation is normal.",
			Proxies: []Proxy{
				{RSID: "rs893363", RiskAllele: "G", Priority: 2}, // v5 Proxy
			},
		},
		"rs429358": {
			RSID: "rs429358", Gene: "APOE-e4", Area: "Metabolic", RiskAllele: "C",
			Description:    "Primary allele for e4 status (AD/CVD risk).",
			RiskAdvice:     "Strictly limit saturated fat (<20g/day). Avoid alcohol. High DHA/EPA.",
			BaselineAdvice: "Standard guidelines for saturated fat and lifestyle apply.",
		},
		"rs9939609": {
			RSID: "rs9939609", Gene: "FTO", Area: "Metabolic", RiskAllele: "A",
			Description:    "Higher Ghrelin/lower satiety.",
			RiskAdvice:     "High-protein breakfasts to curb ghrelin. Focus on high-volume foods.",
			BaselineAdvice: "Satiety signaling is likely functional.",
		},
		"rs10496731": {
			RSID: "rs10496731", Gene: "ACAT1", Area: "Metabolic", RiskAllele: "T",
			Description:    "Lipid metabolism/Cholesterol balance.",
			RiskAdvice:     "Monitor lipid panel closely. Maintain healthy weight.",
			BaselineAdvice: "ACAT1 function likely normal.",
			Proxies: []Proxy{
				{RSID: "rs11887534", RiskAllele: "T", Priority: 2}, // v5 Proxy
				{RSID: "rs1049673", RiskAllele: "C", Priority: 3},  // Deep Proxy
				{RSID: "rs2234997", RiskAllele: "C", Priority: 4},  // v5 chr11 proxy (C risk assumption)
				{RSID: "rs3218707", RiskAllele: "G", Priority: 5},  // v5 chr11 proxy
			},
		},
		"rs225014": {
			RSID: "rs225014", Gene: "DIO2", Area: "Metabolic", RiskAllele: "C",
			Description:    "Thyroid Deiodinase 2 (Thr92Ala).",
			RiskAdvice:     "Poor T4->T3 conversion. Requires Selenium/Zinc. Test Free T3.",
			BaselineAdvice: "Thyroid hormone activation is efficient.",
		},
		"rs4343": {
			RSID: "rs4343", Gene: "ACE", Area: "Metabolic", RiskAllele: "G",
			Description:    "ACE Del/Ins Proxy (G = Deletion/High ACE).",
			RiskAdvice:     "Salt Sensitivity. Higher blood pressure response to sodium.",
			BaselineAdvice: "Normal blood pressure response to salt.",
		},
		"rs1815739": {
			RSID: "rs1815739", Gene: "ACTN3", Area: "Metabolic", RiskAllele: "T",
			Description:    "Muscle Type (T = X allele/Endurance).",
			RiskAdvice:     "Lack of explosive fast-twitch fiber. Advantage: Endurance. Training: High volume.",
			BaselineAdvice: "Sprinter/Power genotype (Functional ACTN3). Advantage: Power/Hypertrophy.",
		},

		// --- MODULE F: SYSTEMIC INFLAMMATION & IRON ---
		"rs1800795": {
			RSID: "rs1800795", Gene: "IL-6", Area: "Systemic Health", RiskAllele: "G",
			Description:    "Interleukin-6 (Pro-inflammatory G allele).",
			RiskAdvice:     "Higher baseline inflammation. Prioritize Omega-3s & Mediterranean diet.",
			BaselineAdvice: "Normal inflammatory cytokine response.",
		},
		"rs1800629": {
			RSID: "rs1800629", Gene: "TNF-a", Area: "Systemic Health", RiskAllele: "A",
			Description:    "Tumor Necrosis Factor alpha (High secretor).",
			RiskAdvice:     "Hyper-inflammatory response. Avoid inflammatory oils (seed oils).",
			BaselineAdvice: "Normal TNF-alpha secretion.",
		},
		"rs1800562": {
			RSID: "rs1800562", Gene: "HFE (C282Y)", Area: "Systemic Health", RiskAllele: "A",
			Description:    "Hemochromatosis Type 1 (Major Risk).",
			RiskAdvice:     "Iron Overload Risk. AVOID Iron supplements/Vitamin C with meat. Monitor Ferritin.",
			BaselineAdvice: "No major genetic risk for iron overload.",
		},
		"rs1799945": {
			RSID: "rs1799945", Gene: "HFE (H63D)", Area: "Systemic Health", RiskAllele: "G",
			Description:    "Hemochromatosis (Minor Risk).",
			RiskAdvice:     "Mild iron loading risk. Monitor Ferritin levels annually.",
			BaselineAdvice: "Iron regulation likely normal.",
		},

		// --- MODULE G: FOOD SENSITIVITIES & GUT ---
		"rs10156191": {
			RSID: "rs10156191", Gene: "AOC1 (DAO)", Area: "Sensitivities", RiskAllele: "T",
			Description:    "Gut Histamine Clearance (T=Met/Low Activity).",
			RiskAdvice:     "Histamine Intolerance risk. Limit aged foods (wine, cheese). Use DAO enzymes.",
			BaselineAdvice: "Gut histamine breakdown is efficient.",
			Proxies: []Proxy{
				{RSID: "rs2052129", RiskAllele: "T", Priority: 2}, // v5 Proxy (T is low activity)
				{RSID: "rs1049793", RiskAllele: "A", Priority: 3}, // v5 Proxy
			},
		},
		"rs601338": {
			RSID: "rs601338", Gene: "FUT2", Area: "Sensitivities", RiskAllele: "A",
			Description:    "Secretor Status (A = Non-Secretor).",
			RiskAdvice:     "Non-Secretor: Low Bifido bacteria. Requires probiotics/prebiotics. Low Norovirus risk.",
			BaselineAdvice: "Secretor: Good gut flora scaffolding. Higher B12 absorption.",
		},
		"rs4988235": {
			RSID: "rs4988235", Gene: "MCM6", Area: "Sensitivities", RiskAllele: "C",
			Description:    "Lactase Non-persistence (C = Intolerant).",
			RiskAdvice:     "Likely Lactose Intolerant. Consider enzyme support or dairy elimination.",
			BaselineAdvice: "Likely Lactase Persistent (Tolerant).",
		},
		"rs762551": {
			RSID: "rs762551", Gene: "CYP1A2", Area: "Sensitivities", RiskAllele: "C",
			Description:    "Slow caffeine metabolizer.",
			RiskAdvice:     "Limit to 1-2 cups of coffee early in day. Avoid caffeine after 12 PM.",
			BaselineAdvice: "Fast metabolizer. Standard caffeine tolerance.",
		},
		"rs2395185": {
			RSID: "rs2395185", Gene: "HLA-DQ2.5", Area: "Sensitivities", RiskAllele: "G",
			Description:    "Gluten Sensitivity Tag (HLA Complex).",
			RiskAdvice:     "High genetic risk for Celiac/Gluten Sensitivity. Monitor for autoimmune symptoms.",
			BaselineAdvice: "Standard risk for gluten sensitivity.",
		},

		// --- MODULE H: NEURODIVERSITY EXTENSION ---
		// Vitamin D / VDR
		"rs10741657": {
			RSID: "rs10741657", Gene: "CYP2R1", Area: "Vitamin Metabolism", RiskAllele: "G",
			Description:    "Vitamin D 25-hydroxylase (Conversion enzyme).",
			RiskAdvice:     "Reduced conversion of D3 to active 25(OH)D. Supplement D3 and monitor levels.",
			BaselineAdvice: "Vitamin D conversion enzyme function is optimal.",
		},
		// Omega-3
		"rs174548": {
			RSID: "rs174548", Gene: "FADS1", Area: "Metabolic", RiskAllele: "C",
			Description:    "Fatty Acid Desaturase 1 (D5D) activity.",
			RiskAdvice:     "Poor conversion of plant Omega-3 (ALA) to EPA. Direct EPA/DHA intake (fish oil) required.",
			BaselineAdvice: "Conversion of plant-based Omega-3s is efficient.",
		},
		"rs174575": {
			RSID: "rs174575", Gene: "FADS2", Area: "Metabolic", RiskAllele: "G",
			Description:    "Fatty Acid Desaturase 2 (D6D) expression.",
			RiskAdvice:     "Reduced synthesis of LC-PUFAs. Prioritize preformed Omega-3s (Algae/Fish Oil).",
			BaselineAdvice: "Desaturase enzyme expression is normal.",
		},
		// Oxytocin
		"rs53576": {
			RSID: "rs53576", Gene: "OXTR", Area: "Neurotransmitter", RiskAllele: "A",
			Description:    "Oxytocin Receptor: Social bonding & stress buffering.",
			RiskAdvice:     "Reduced oxytocin sensitivity. Manage stress consciously. Social support is vital.",
			BaselineAdvice: "Oxytocin signaling for social bonding is optimal.",
		},
		"rs2254298": {
			RSID: "rs2254298", Gene: "OXTR", Area: "Neurotransmitter", RiskAllele: "A",
			Description:    "Oxytocin Receptor: Associated with mood regulation.",
			RiskAdvice:     "May benefit from stress-reduction techniques and strong social connections.",
			BaselineAdvice: "Receptor function likely normal.",
		}, "rs237885": {
			RSID: "rs237885", Gene: "OXTR", Area: "Neurodiversity", RiskAllele: "G",
			Description:    "Oxytocin Receptor: Linked to social recognition & ASD.",
			RiskAdvice:     "Associated with social cognitive changes. Early social skills intervention can be beneficial.",
			BaselineAdvice: "Standard profile for this ASD-linked marker.",
		},
		// SHANK3
		"rs9616915": {
			RSID: "rs9616915", Gene: "SHANK3", Area: "Neurodiversity", RiskAllele: "T",
			Description:    "Synaptic scaffolding protein (Post-synaptic density).",
			RiskAdvice:     "Linked to synaptic function variances (ASD risk). Support w/ Zinc/Magnesium. Sensory modulation.",
			BaselineAdvice: "Synaptic scaffolding variation likely normal.",
		}, // Serotonin
		"rs4570625": {
			RSID: "rs4570625", Gene: "TPH2", Area: "Neurotransmitter", RiskAllele: "T",
			Description:    "Tryptophan Hydroxylase 2: Rate-limiting brain serotonin synthesis.",
			RiskAdvice:     "Associated with amygdala hyper-reactivity (Anxiety). Stress management is key.",
			BaselineAdvice: "Brain serotonin synthesis rate likely normal.",
		},
		"rs2020933": {
			RSID: "rs2020933", Gene: "SLC6A4", Area: "Neurotransmitter", RiskAllele: "A",
			Description:    "Serotonin Transporter (5-HTTLPR Proxy).",
			RiskAdvice:     "Reduced serotonin recycling. Similar to Short allele. Exercise & sunlight boost serotonin.",
			BaselineAdvice: "Serotonin transport function likely normal.",
		},
		// Dopamine Extended
		"rs6277": {
			RSID: "rs6277", Gene: "DRD2", Area: "Neurotransmitter", RiskAllele: "A",
			Description:    "C939T: DRD2 availability/stability.",
			RiskAdvice:     "May affect dopamine stability. Support with adequate Tyrosine/B6.",
			BaselineAdvice: "Dopamine receptor stability appears normal.",
		},

		// --- MODULE I: ADHD & NEURODIVERSITY RISK ---
		// ADRA2A
		"rs1800544": {
			RSID: "rs1800544", Gene: "ADRA2A", Area: "Neurodiversity", RiskAllele: "G",
			Description:    "Alpha-2A Adrenergic Receptor (Norepinephrine regulation).",
			RiskAdvice:     "High Norepinephrine release. Linked to 'Fight or Flight' & ADHD. Prioritize sleep/stress mgmt.",
			BaselineAdvice: "Norepinephrine regulation is likely balanced.",
		},
		// SNAP25
		"rs3746544": {
			RSID: "rs3746544", Gene: "SNAP25", Area: "Neurodiversity", RiskAllele: "T",
			Description:    "Synaptic membrane protein (Neurotransmitter release).",
			RiskAdvice:     "Linked to hyperactivity/inattention. Support synapses with Omega-3 (DHA) & Zinc.",
			BaselineAdvice: "Synaptic vesicle fusion likely optimal.",
		},
		// DBH
		"rs1611115": {
			RSID: "rs1611115", Gene: "DBH", Area: "Neurodiversity", RiskAllele: "C",
			Description:    "Dopamine Beta-Hydroxylase (DA -> NE conversion).",
			RiskAdvice:     "Fast conversion (Low Dopamine). May improve with Tyrosine (AM). Linked to inattention.",
			BaselineAdvice: "Dopamine to Norepinephrine conversion rate likely normal.",
		},

		// --- MODULE J: EXPANDED NEURODIVERSITY (ADHD/ASD) ---
		"rs40184": {
			RSID: "rs40184", Gene: "SLC6A3", Area: "Neurodiversity", RiskAllele: "C",
			Description:    "DAT1: Dopamine Transporter (3' UTR Proxy).",
			RiskAdvice:     "High Dopamine Reuptake. Reduced dopamine availability in synapse. Support with Zinc, Magnesium, and steady protein intake.",
			BaselineAdvice: "Dopamine transport efficiency likely balanced.",
		},
		"rs936461": {
			RSID: "rs936461", Gene: "DRD4", Area: "Neurodiversity", RiskAllele: "A",
			Description:    "DRD4: Dopamine Receptor D4 Promoter.",
			RiskAdvice:     "Linked to altered D4 expression. Monitor for novelty-seeking/distraction. Support dopamine balance.",
			BaselineAdvice: "D4 receptor expression levels likely typical.",
		},
		"rs1387923": {
			RSID: "rs1387923", Gene: "NTRK2", Area: "Neurodiversity", RiskAllele: "A",
			Description:    "TrkB: Receptor for BDNF (Growth Factor).",
			RiskAdvice:     "Crucial for synaptic plasticity. Support BDNF with intense exercise, Omega-3s (DHA), and Zinc.",
			BaselineAdvice: "Neurotrophic signaling capacity appears normal.",
		},
		"rs1843809": {
			RSID: "rs1843809", Gene: "TPH2", Area: "Neurodiversity", RiskAllele: "T",
			Description:    "TPH2: Brain Serotonin Synthesis.",
			RiskAdvice:     "Impacts serotonin synthesis. Support with sleep hygiene & stress reduction.",
			BaselineAdvice: "Serotonin synthesis capacity appears standard.",
		},

		// --- MODULE K: IMMUNE HEALTH (GENERAL) ---
		"rs2240340": {
			RSID: "rs2240340", Gene: "PADI4", Area: "Autoimmunity", RiskAllele: "T",
			Description:    "Peptidyl Arginine Deiminase 4 (RA Susceptibility).",
			RiskAdvice:     "Increased risk for Rheumatoid Arthritis/Citrullination. Anti-inflammatory diet essential.",
			BaselineAdvice: "PADI4 function appears normal.",
		},
		"rs7574865": {
			RSID: "rs7574865", Gene: "STAT4", Area: "Autoimmunity", RiskAllele: "T",
			Description:    "Signal Transducer and Activator of Transcription 4.",
			RiskAdvice:     "Linked to SLE/RA risk. Modulate Th1 immune response (Vitamin D3).",
			BaselineAdvice: "STAT4 signaling likely balanced.",
		},
		"rs3212227": {
			RSID: "rs3212227", Gene: "IL12B", Area: "Autoimmunity", RiskAllele: "T",
			Description:    "Interleukin 12B (Psoriasis/PsA Link).",
			RiskAdvice:     "Higher risk for Psoriatic Arthritis. Support skin barrier & regulate IL-12/IL-23.",
			BaselineAdvice: "IL-12 pathway function normal.",
		},
		"rs10484554": {
			RSID: "rs10484554", Gene: "HLA-C", Area: "Joint Health", RiskAllele: "T",
			Description:    "Major Psoriasis Driver (PSORS1).",
			RiskAdvice:     "Strong link to Skin Psoriasis & PsA. Aggressive skin/gut support recommended.",
			BaselineAdvice: "Standard HLA-C risk profile.",
		},
		"rs4349859": {
			RSID: "rs4349859", Gene: "HLA-B27", Area: "Joint Health", RiskAllele: "A",
			Description:    "HLA-B27 Tag (Ankylosing Spondylitis).",
			RiskAdvice:     "Risk for AS/Reiter's. Low starch/KLEbsiella control diet often helpful.",
			BaselineAdvice: "Negative for primary HLA-B27 tag.",
		},
		"rs13202464": {
			RSID: "rs13202464", Gene: "HLA-B27", Area: "Joint Health", RiskAllele: "G",
			Description:    "HLA-B27 Secondary Tag.",
			RiskAdvice:     "Secondary indicator for AS risk. Monitor joint/spine stiffness.",
			BaselineAdvice: "Negative for secondary HLA-B27 tag.",
		},
		"rs660895": {
			RSID: "rs660895", Gene: "HLA-DRB1", Area: "Autoimmunity", RiskAllele: "A",
			Description:    "Shared Epitope Tag (RA Risk).",
			RiskAdvice:     "Associated with RA severity. Early joint protection strategies.",
			BaselineAdvice: "No Shared Epitope tag found.",
		},
		"rs33980500": {
			RSID: "rs33980500", Gene: "TRAF3IP2", Area: "Joint Health", RiskAllele: "T",
			Description:    "ACT1 (IL-17 Pathway).",
			RiskAdvice:     "PsA/Psoriasis link. Th17 modulation required.",
			BaselineAdvice: "Normal IL-17 signaling regulation.",
		},

		// --- Missing/Proxy Candidates (e.g. CVID) ---
		// Note directly: These often miss on v5 but are prioritized if found.

		"rs439888": {
			RSID: "rs439888", Gene: "MET", Area: "Neurodiversity", RiskAllele: "C",
			Description:    "MET Promoter: Reduced MET gene expression.",
			RiskAdvice:     "Linked to altered brain connectivity/ASD risk. Support oxidative balance (Vit C, Glutathione).",
			BaselineAdvice: "MET gene expression likely normal.",
		},
		"rs6280": {
			RSID: "rs6280", Gene: "DRD3", Area: "Neurodiversity", RiskAllele: "T",
			Description:    "Ser9Gly: Dopamine D3 Receptor Sensitivity.",
			RiskAdvice:     "Gly (T) variant linked to Impulsivity/ADHD. Support dopamine balance (B6, Magnesium).",
			BaselineAdvice: "D3 receptor sensitivity likely standard.",
		},
		"rs4606": {
			RSID: "rs4606", Gene: "RGS2", Area: "Neurodiversity", RiskAllele: "G",
			Description:    "Regulator of G-protein Signaling 2 (Anxiety 'Brake').",
			RiskAdvice:     "Reduced RGS2 expression linked to Anxiety/Panic. Prioritize stress mgmt & GABA support (Magnesium).",
			BaselineAdvice: "RGS2 expression for anxiety regulation likely normal.",
		},

		// --- MODULE K: IMMUNE HEALTH (GENERAL) ---
		
		// MBL2 (Manose Binding Lectin)
		"rs1800450": {
			RSID: "rs1800450", Gene: "MBL2", Area: "Immune Health", RiskAllele: "A",
			Description:    "Codon 54: MBL Deficiency Variant.",
			RiskAdvice:     "Low levels of Mannose-Binding Lectin. Increased susceptibility to bacterial/yeast infections. Early antibiotic intervention often needed.",
			BaselineAdvice: "Normal MBL2 genotype (Codon 54).",
		},

		// FCGR2A (IgG Binding)
		"rs1801274": {
			RSID: "rs1801274", Gene: "FCGR2A", Area: "Immune Health", RiskAllele: "G",
			Description:    "H131R (R131 variant). IgG2 Binding Efficiency.",
			RiskAdvice:     "Lower affinity for IgG2 (encapsulated bacteria). May clear infections slower.",
			BaselineAdvice: "Normal IgG binding efficiency (H131).",
		},

		// IL-10 (Anti-inflammatory)
		"rs1800896": {
			RSID: "rs1800896", Gene: "IL10", Area: "Immune Health", RiskAllele: "T",
			Description:    "IL-10 Promoter (-1082): Cytokine Production.",
			RiskAdvice:     "Low IL-10 production. Reduced ability to 'turn off' inflammation. Pro-inflammatory bias.",
			BaselineAdvice: "Normal IL-10 production capacity.",
		},

		// TLR4 (Bacterial Sensing)
		"rs4986790": {
			RSID: "rs4986790", Gene: "TLR4", Area: "Immune Health", RiskAllele: "G",
			Description:    "Asp299Gly: LPS Sensing.",
			RiskAdvice:     "Blunted response to Gram-negative bacteria (LPS).",
			BaselineAdvice: "Normal Toll-Like Receptor 4 function.",
		},

		// --- VIRAL DEFENSE ---

		// IFNL3 (Interferon Lambda 3 / IL28B)
		"rs12979860": {
			RSID: "rs12979860", Gene: "IFNL3", Area: "Immune Health", RiskAllele: "T",
			Description:    "Viral Clearance (Hep C/Flu).",
			RiskAdvice:     "Reduced spontaneous viral clearance. May require longer/stronger treatment for viral infections.",
			BaselineAdvice: "Efficient viral clearance genotype (CC).",
		},
		
		// TMPRSS2 (Viral Entry)
		"rs12329760": {
			RSID: "rs12329760", Gene: "TMPRSS2", Area: "Immune Health", RiskAllele: "C",
			Description:    "Androgen-regulated Protease (Viral Entry).",
			RiskAdvice:     "Higher expression. Potentially facilitates viral entry (e.g. Coronaviruses/Flu).",
			BaselineAdvice: "Lower expression variant.",
		},

		// IRF5 (Dual Edge: Viral vs Autoimmune)
		"rs10488631": {
			RSID: "rs10488631", Gene: "IRF5", Area: "Immune Health", RiskAllele: "C",
			Description:    "Interferon Regulatory Factor 5.",
			RiskAdvice:     "High Expression: Stronger antiviral defense but increased Autoimmune risk (SLE).",
			BaselineAdvice: "Balanced IRF5 expression.",
		},

		// --- MODULE L: AUTOIMMUNITY & JOINT HEALTH (EXPANDED) ---
		"rs6679677": {
			RSID: "rs6679677", Gene: "PTPN22", Area: "Autoimmunity", RiskAllele: "A", 
			Description:    "T-Cell Regulation (R620W Proxy). Major Autoimmune Risk.",
			RiskAdvice:     "Disrupts T-cell control. High Autoimmune risk (RA/Lupus). Prioritize Vitamin D & Omega-3s.",
			BaselineAdvice: "PTPN22 function appears normal.",
		},
		"rs231775": {
			RSID: "rs231775", Gene: "CTLA4", Area: "Autoimmunity", RiskAllele: "G",
			Description:    "CTLA4 (+49A/G): Immune System 'Brake'.",
			RiskAdvice:     "Reduced braking efficiency. Susceptibility to thyroid autoimmunity. Selenium is critical.",
			BaselineAdvice: "CTLA4 braking function likely standard.",
		},
		"rs3087243": {
			RSID: "rs3087243", Gene: "CTLA4", Area: "Autoimmunity", RiskAllele: "G",
			Description:    "CT60 Isoform: Soluble CTLA-4 levels.",
			RiskAdvice:     "Lowers soluble CTLA-4. Reduces threshold for immune attack. Focus on gut health.",
			BaselineAdvice: "Normal isoform balance likely.",
		},
		"rs2230926": {
			RSID: "rs2230926", Gene: "TNFAIP3", Area: "Immune Health", RiskAllele: "G",
			Description:    "A20 Protein (Phe127Cys): Inflammation Off-Switch.",
			RiskAdvice:     "Impaired NF-kB inhibition. Chronic inflammation risk. Anti-inflammatory diet (Curcumin/Resveratrol).",
			BaselineAdvice: "Intact A20 anti-inflammatory function.",
		},
		"rs2104286": {
			RSID: "rs2104286", Gene: "IL2RA", Area: "Autoimmunity", RiskAllele: "C",
			Description:    "CD25/Treg Function.",
			RiskAdvice:     "Altered Treg function. susceptibility to T1D/Autoimmunity. Support with Vit A & D.",
			BaselineAdvice: "Normal IL-2RA expression patterns.",
		},
		"rs1883832": {
			RSID: "rs1883832", Gene: "CD40", Area: "Autoimmunity", RiskAllele: "C",
			Description:    "Kozak Sequence: B-Cell Costimulation.",
			RiskAdvice:     "Increases CD40 translation (Overactive B-cells). Graves/Thyroid risk. Manage stress/cortisol.",
			BaselineAdvice: "Normal translation efficiency.",
		},
		"rs1143627": {
			RSID: "rs1143627", Gene: "IL1B", Area: "Joint Health", RiskAllele: "A",
			Description:    "IL-1 Beta Promoter (-31): TATA Variant.",
			RiskAdvice:     "High Expression. Increased inflammatory cytokines. Cartilage risk. Use Boswellia/Anti-inflammatories.",
			BaselineAdvice: "Normal transcriptional activity.",
		},
		"rs16944": {
			RSID: "rs16944", Gene: "IL1B", Area: "Joint Health", RiskAllele: "A",
			Description:    "IL-1 Beta Promoter (-511): Hyper-secretor.",
			RiskAdvice:     "Increased risk of erosive arthritis/gastric issues. Quercetin & Fish Oil recommended.",
			BaselineAdvice: "Standard IL-1B secretion levels.",
		},
		"rs30187": {
			RSID: "rs30187", Gene: "ERAP1", Area: "Joint Health", RiskAllele: "T",
			Description:    "ERAP1 (K528R): Peptide trimming for HLA.",
			RiskAdvice:     "Maintains high activity. AS risk if B27+. Low starch diet often advised.",
			BaselineAdvice: "Carrying protective/lower activity variant.",
		},
		"rs2275913": {
			RSID: "rs2275913", Gene: "IL17A", Area: "Joint Health", RiskAllele: "A",
			Description:    "IL-17A Promoter (-197): Th17 Driver.",
			RiskAdvice:     "Hyper-expression. Drives chronic joint/gut inflammation. Berberine/Zinc to downregulate Th17.",
			BaselineAdvice: "Normal IL-17 expression.",
		},
		"rs34536443": {
			RSID: "rs34536443", Gene: "TYK2", Area: "Autoimmunity", RiskAllele: "G",
			Description:    "Tyrosine Kinase 2 (P1104A).",
			RiskAdvice:     "Standard Susceptibility (Lacking Protective Variant). Focus on general immune hygiene.",
			BaselineAdvice: "Carrier of protective TYK2 mutation.",
		},

		// --- MODULE M: MITOCHONDRIAL & ENERGY METABOLISM ---
		"rs8192678": {
			RSID: "rs8192678", Gene: "PPARGC1A", Area: "Mitochondrial Health", RiskAllele: "T",
			Description:    "PGC-1alpha (Gly482Ser): Mitochondrial Biogenesis Regulator.",
			RiskAdvice:     "Lower efficiency. Prioritize Zone 2 cardio & Cold Exposure. Fasting beneficial.",
			BaselineAdvice: "Mitochondrial biogenesis regulation is efficient.",
		},
		"rs2853826": {
			RSID: "rs2853826", Gene: "MT-ND3", Area: "Mitochondrial Health", RiskAllele: "A",
			Description:    "NADH Dehydrogenase 3 (G10398A): Longevity Link.",
			RiskAdvice:     "Standard metabolic rate. Ensure high antioxidant intake.",
			BaselineAdvice: "Protective 'G' allele found (Associated with Longevity/Buffer against ROS).",
		},
		"rs660339": {
			RSID: "rs660339", Gene: "UCP2", Area: "Mitochondrial Health", RiskAllele: "G",
			Description:    "Uncoupling Protein 2 (Promoter): Metabolic Efficiency.",
			RiskAdvice:     "'Thrifty' metabolism. Very efficient at storing fat. Avoid caloric surplus.",
			BaselineAdvice: "Higher metabolic burn rate (Thermogenic). Lower obesity risk.",
		},
		"rs1801282": {
			RSID: "rs1801282", Gene: "PPARG", Area: "Mitochondrial Health", RiskAllele: "C",
			Description:    "PPAR-gamma (Pro12Ala): Insulin Sensitivity.",
			RiskAdvice:     "Standard insulin sensitivity. Requires exercise for optimization.",
			BaselineAdvice: "Carrier of protective 'Ala' variant. Enhanced insulin sensitivity.",
		},
	}

	categories := []string{"Methylation", "Neurotransmitter", "Detoxification", "Vitamin Metabolism", "Metabolic", "Systemic Health", "Sensitivities", "Neurodiversity", "Immune Health", "Immune Function", "Viral Defense", "Autoimmunity", "Joint Health", "Mitochondrial Health"}
	scores := make(map[string]*CategoryScore)
	for _, cat := range categories {
		scores[cat] = &CategoryScore{Name: cat}
	}

	foundResults := make(map[string]ResultRow)
	targetMap := make(map[string][]string)

	for k, m := range markers {
		foundResults[k] = ResultRow{Marker: m, Genotype: "Not Found", Impact: "-", MatchPriority: 999}
		targetMap[m.RSID] = append(targetMap[m.RSID], k)
		for _, p := range m.Proxies {
			targetMap[p.RSID] = append(targetMap[p.RSID], k)
		}
	}

	file, err := os.Open(filePath)
	if err != nil {
		fmt.Printf("Error opening file: %v\n", err)
		return
	}
	defer file.Close()

	fmt.Println(">> Analyzing Genomic Blueprint for 23andMe v5 data...")

	scanner := bufio.NewScanner(file)
	for scanner.Scan() {
		line := scanner.Text()
		if strings.HasPrefix(line, "#") || line == "" {
			continue
		}
		fields := strings.Fields(line)
		if len(fields) < 4 {
			continue
		}

		fileRSID := fields[0]
		genotype := fields[3]
		if len(fields) > 4 {
			genotype += fields[4]
		}

		if keys, exists := targetMap[fileRSID]; exists {
			for _, primaryKey := range keys {
				marker := markers[primaryKey]
				priority := 999
				isProxy := false

				if fileRSID == marker.RSID {
					priority = 0
				} else {
					for _, p := range marker.Proxies {
						if p.RSID == fileRSID {
							priority = p.Priority
							isProxy = true
							break
						}
					}
				}

				if priority < foundResults[primaryKey].MatchPriority {
					if genotype == "--" || genotype == "__" || genotype == "DI" {
						continue
					}
					foundResults[primaryKey] = ResultRow{
						Marker:        marker,
						Genotype:      genotype,
						UsedProxy:     isProxy,
						ProxyRSID:     fileRSID,
						MatchPriority: priority,
					}
				}
			}
		}
	}

	// Logic processing
	for k, row := range foundResults {
		if row.MatchPriority == 999 {
			continue
		}

		riskAllele := row.Marker.RiskAllele
		if row.UsedProxy {
			for _, p := range row.Marker.Proxies {
				if p.RSID == row.ProxyRSID {
					riskAllele = p.RiskAllele
					break
				}
			}
		}

		count := strings.Count(row.Genotype, riskAllele)
		cat := scores[row.Marker.Area]

		if count == 2 {
			row.Impact = "HOMOZYGOUS"
			cat.Score += 1.0
			cat.MarkersFound++
			row.Recommendation = row.Marker.RiskAdvice
		} else if count == 1 {
			row.Impact = "HETEROZYGOUS"
			cat.Score += 0.5
			cat.MarkersFound++
			row.Recommendation = row.Marker.RiskAdvice
		} else {
			row.Impact = "NORMAL"
			row.Recommendation = row.Marker.BaselineAdvice
		}

		foundResults[k] = row
	}

	// Output Formatting
	fmt.Println("\n" + strings.Repeat("=", 120))
	fmt.Printf("%-15s %-12s %-15s %-12s %-60s\n", "AREA", "GENE", "SNP", "GENOTYPE", "NUTRITIONAL ALGORITHM / RECOMMENDATION")
	fmt.Println(strings.Repeat("-", 120))

	// Group results by category
	resultsByCategory := make(map[string][]ResultRow)
	for _, res := range foundResults {
		resultsByCategory[res.Marker.Area] = append(resultsByCategory[res.Marker.Area], res)
	}

	for _, catName := range categories {
		rows := resultsByCategory[catName]
		if len(rows) == 0 {
			continue
		}

		// Sort by Gene within category
		sort.Slice(rows, func(i, j int) bool {
			return rows[i].Marker.Gene < rows[j].Marker.Gene
		})

		fmt.Printf("\n--- %s ---\n", strings.ToUpper(catName))
		for _, res := range rows {
			snpLabel := res.Marker.RSID
			if res.UsedProxy {
				snpLabel = fmt.Sprintf("~%s", res.ProxyRSID)
			}

			symbol := ""
			colorCode := ""
			if res.Impact == "HOMOZYGOUS" {
				symbol = "[!!]"
				colorCode = ColorRed
			} else if res.Impact == "HETEROZYGOUS" {
				symbol = "[!]"
				colorCode = ColorYellow
			} else {
				symbol = "[OK]"
				colorCode = ColorGreen
			}

			// Pad manually so coloring doesn't mess up alignment
			coloredSymbol := colorCode + fmt.Sprintf("%-15s", symbol) + ColorReset

			fmt.Printf("%s %-12s %-15s %-12s %-60s\n",
				coloredSymbol, res.Marker.Gene, snpLabel, res.Genotype, res.Recommendation)
		}
	}

	fmt.Println("\n" + strings.Repeat("=", 120))
	fmt.Println("SUMMARY BY PATHWAY")
	for _, catName := range categories {
		if len(resultsByCategory[catName]) == 0 {
			continue
		}
		cat := scores[catName]
		status := "Optimal"
		statusColor := ColorGreen
		if cat.Score >= 2.0 {
			status = "High Support Needed"
			statusColor = ColorRed
		} else if cat.Score >= 1.0 {
			status = "Moderate Support"
			statusColor = ColorYellow
		}
		fmt.Printf(" • %-20s Score: %3.1f  | Status: %s%s%s\n", cat.Name, cat.Score, statusColor, status, ColorReset)
	}
	fmt.Println(strings.Repeat("=", 120))
	fmt.Println("Note: '~' denotes a Proxy marker was used for v5 chip compatibility.")
}