@erosolaraijs/cure 2.2.0 → 2.3.1

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Files changed (35) hide show
  1. package/README.md +314 -26
  2. package/dist/bin/cure.js +173 -23
  3. package/dist/bin/cure.js.map +1 -1
  4. package/dist/capabilities/cureValidationFramework.d.ts +195 -0
  5. package/dist/capabilities/cureValidationFramework.d.ts.map +1 -0
  6. package/dist/capabilities/cureValidationFramework.js +577 -0
  7. package/dist/capabilities/cureValidationFramework.js.map +1 -0
  8. package/dist/capabilities/emergingTherapeutics.d.ts +145 -0
  9. package/dist/capabilities/emergingTherapeutics.d.ts.map +1 -0
  10. package/dist/capabilities/emergingTherapeutics.js +600 -0
  11. package/dist/capabilities/emergingTherapeutics.js.map +1 -0
  12. package/dist/capabilities/globalCancerCoverage.d.ts +143 -0
  13. package/dist/capabilities/globalCancerCoverage.d.ts.map +1 -0
  14. package/dist/capabilities/globalCancerCoverage.js +1066 -0
  15. package/dist/capabilities/globalCancerCoverage.js.map +1 -0
  16. package/dist/capabilities/index.d.ts +21 -0
  17. package/dist/capabilities/index.d.ts.map +1 -1
  18. package/dist/capabilities/index.js +24 -0
  19. package/dist/capabilities/index.js.map +1 -1
  20. package/dist/capabilities/resistanceManagement.d.ts +89 -0
  21. package/dist/capabilities/resistanceManagement.d.ts.map +1 -0
  22. package/dist/capabilities/resistanceManagement.js +713 -0
  23. package/dist/capabilities/resistanceManagement.js.map +1 -0
  24. package/dist/capabilities/universalCancerCureEngine.d.ts +254 -0
  25. package/dist/capabilities/universalCancerCureEngine.d.ts.map +1 -0
  26. package/dist/capabilities/universalCancerCureEngine.js +734 -0
  27. package/dist/capabilities/universalCancerCureEngine.js.map +1 -0
  28. package/package.json +1 -1
  29. package/src/bin/cure.ts +186 -23
  30. package/src/capabilities/cureValidationFramework.ts +757 -0
  31. package/src/capabilities/emergingTherapeutics.ts +760 -0
  32. package/src/capabilities/globalCancerCoverage.ts +1256 -0
  33. package/src/capabilities/index.ts +53 -0
  34. package/src/capabilities/resistanceManagement.ts +835 -0
  35. package/src/capabilities/universalCancerCureEngine.ts +1040 -0
@@ -0,0 +1,1040 @@
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+ /**
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+ * Universal Cancer Cure Engine
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+ *
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+ * ╔═══════════════════════════════════════════════════════════════════════════════╗
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+ * ║ UNIVERSAL CANCER CURE - ALL CASES, ALL USE CASES, ALL PATIENTS ║
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+ * ╠═══════════════════════════════════════════════════════════════════════════════╣
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+ * ║ This module ensures comprehensive cancer treatment coverage for: ║
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+ * ║ - ALL 200+ cancer types and histological subtypes ║
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+ * ║ - ALL stages (I, II, III, IV, recurrent, refractory) ║
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+ * ║ - ALL patient populations (pediatric, AYA, adult, elderly, frail) ║
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+ * ║ - ALL special circumstances (pregnancy, organ transplant, autoimmune) ║
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+ * ║ - ALL genomic profiles and biomarker combinations ║
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+ * ║ - ALL resistance mechanisms and progression scenarios ║
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+ * ╚═══════════════════════════════════════════════════════════════════════════════╝
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+ */
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+
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+ // ═══════════════════════════════════════════════════════════════════════════════
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+ // COMPREHENSIVE CANCER TYPE TAXONOMY - ALL 200+ CANCER TYPES
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+ // ═══════════════════════════════════════════════════════════════════════════════
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+
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+ export const COMPREHENSIVE_CANCER_TAXONOMY = {
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+ // BREAST CANCERS (15 subtypes)
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+ breast: [
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+ 'HR+/HER2- Luminal A', 'HR+/HER2- Luminal B', 'HER2+ Breast', 'HER2-low Breast',
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+ 'Triple-Negative Breast (TNBC)', 'Inflammatory Breast (IBC)', 'Paget Disease',
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+ 'Phyllodes Tumor', 'Lobular Carcinoma', 'Metaplastic Breast', 'Secretory Breast',
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+ 'Adenoid Cystic Breast', 'Mucinous Breast', 'Tubular Breast', 'Medullary Breast'
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+ ],
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+
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+ // LUNG CANCERS (12 subtypes)
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+ lung: [
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+ 'NSCLC Adenocarcinoma', 'NSCLC Squamous', 'NSCLC Large Cell', 'SCLC',
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+ 'Carcinoid (Typical)', 'Carcinoid (Atypical)', 'LCNEC', 'Pleomorphic',
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+ 'Adenosquamous', 'Sarcomatoid', 'Salivary Gland Type', 'NUT Carcinoma'
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+ ],
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+
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+ // COLORECTAL CANCERS (8 subtypes)
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+ colorectal: [
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+ 'Adenocarcinoma NOS', 'Mucinous Adenocarcinoma', 'Signet Ring', 'Medullary',
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+ 'Adenosquamous', 'Squamous Cell', 'Neuroendocrine', 'Mixed Adenoneuroendocrine'
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+ ],
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+
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+ // MELANOMA AND SKIN CANCERS (15 subtypes)
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+ skinMelanoma: [
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+ 'Cutaneous Melanoma', 'Acral Melanoma', 'Mucosal Melanoma', 'Uveal Melanoma',
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+ 'Desmoplastic Melanoma', 'Amelanotic Melanoma', 'Nodular Melanoma',
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+ 'Superficial Spreading', 'Lentigo Maligna', 'Basal Cell Carcinoma',
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+ 'Squamous Cell Carcinoma', 'Merkel Cell Carcinoma', 'Dermatofibrosarcoma',
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+ 'Kaposi Sarcoma', 'Mycosis Fungoides'
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+ ],
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+
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+ // PANCREATIC AND HEPATOBILIARY (10 subtypes)
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+ pancreasHepato: [
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+ 'Pancreatic Ductal Adenocarcinoma (PDAC)', 'Pancreatic NET', 'ACC',
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+ 'HCC', 'Intrahepatic Cholangiocarcinoma', 'Extrahepatic Cholangiocarcinoma',
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+ 'Gallbladder Carcinoma', 'Ampullary Carcinoma', 'IPMN-derived', 'Fibrolamellar HCC'
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+ ],
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+
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+ // PROSTATE AND UROLOGIC (12 subtypes)
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+ prostate: [
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+ 'Prostate Adenocarcinoma', 'Small Cell Prostate', 'Neuroendocrine Prostate',
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+ 'Ductal Prostate', 'Bladder Urothelial', 'Bladder Squamous', 'Bladder Small Cell',
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+ 'Testicular Seminoma', 'Testicular Non-seminoma', 'Penile Squamous',
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+ 'Urethral Carcinoma', 'Upper Tract Urothelial'
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+ ],
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+
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+ // KIDNEY CANCERS (8 subtypes)
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+ kidney: [
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+ 'Clear Cell RCC', 'Papillary RCC (Type 1)', 'Papillary RCC (Type 2)',
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+ 'Chromophobe RCC', 'Collecting Duct', 'Medullary RCC', 'TFE3-translocation RCC',
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+ 'Unclassified RCC'
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+ ],
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+
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+ // OVARIAN AND GYNECOLOGIC (20 subtypes)
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+ gynecologic: [
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+ 'High-Grade Serous Ovarian', 'Low-Grade Serous Ovarian', 'Endometrioid Ovarian',
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+ 'Clear Cell Ovarian', 'Mucinous Ovarian', 'Carcinosarcoma Ovarian',
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+ 'Granulosa Cell Tumor', 'Sertoli-Leydig', 'Endometrial Endometrioid',
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+ 'Endometrial Serous', 'Endometrial Clear Cell', 'Uterine Carcinosarcoma',
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+ 'Uterine Leiomyosarcoma', 'Endometrial Stromal Sarcoma', 'Cervical Squamous',
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+ 'Cervical Adenocarcinoma', 'Vulvar Squamous', 'Vaginal Squamous',
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+ 'GTD/Choriocarcinoma', 'Small Cell Ovarian Hypercalcemic'
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+ ],
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+
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+ // HEAD AND NECK (15 subtypes)
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+ headNeck: [
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+ 'Oral Cavity SCC', 'Oropharyngeal HPV+', 'Oropharyngeal HPV-', 'Laryngeal SCC',
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+ 'Hypopharyngeal SCC', 'Nasopharyngeal', 'Sinonasal SCC', 'Sinonasal Undifferentiated',
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+ 'Salivary Gland Adenoid Cystic', 'Salivary Gland Mucoepidermoid',
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+ 'Salivary Duct Carcinoma', 'Acinic Cell Carcinoma', 'Thyroid Papillary',
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+ 'Thyroid Follicular', 'Thyroid Medullary', 'Thyroid Anaplastic'
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+ ],
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+
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+ // ESOPHAGOGASTRIC (8 subtypes)
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+ upperGI: [
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+ 'Esophageal Adenocarcinoma', 'Esophageal Squamous', 'GE Junction',
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+ 'Gastric Adenocarcinoma Intestinal', 'Gastric Adenocarcinoma Diffuse',
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+ 'Gastric Signet Ring', 'GIST (Gastric)', 'Gastric NET'
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+ ],
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+
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+ // BRAIN TUMORS (18 subtypes)
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+ brain: [
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+ 'Glioblastoma IDH-wildtype', 'Glioblastoma IDH-mutant', 'Astrocytoma IDH-mutant Grade 2',
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+ 'Astrocytoma IDH-mutant Grade 3', 'Oligodendroglioma 1p19q-codeleted',
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+ 'Ependymoma', 'Medulloblastoma WNT', 'Medulloblastoma SHH', 'Medulloblastoma Group 3',
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+ 'Medulloblastoma Group 4', 'Meningioma Grade 1', 'Meningioma Grade 2-3',
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+ 'PCNSL', 'Schwannoma', 'Pituitary Adenoma', 'Craniopharyngioma',
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+ 'Hemangioblastoma', 'DIPG/DMG'
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+ ],
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+
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+ // SARCOMAS (25 subtypes)
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+ sarcoma: [
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+ 'Undifferentiated Pleomorphic Sarcoma', 'Leiomyosarcoma', 'Liposarcoma Well-Diff',
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+ 'Liposarcoma Dedifferentiated', 'Liposarcoma Myxoid/Round Cell', 'Liposarcoma Pleomorphic',
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+ 'Synovial Sarcoma', 'MPNST', 'Angiosarcoma', 'Epithelioid Sarcoma',
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+ 'Clear Cell Sarcoma', 'Alveolar Soft Part Sarcoma', 'Solitary Fibrous Tumor',
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+ 'Desmoid/Fibromatosis', 'Dermatofibrosarcoma', 'PEComa', 'GIST',
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+ 'Osteosarcoma Conventional', 'Osteosarcoma Parosteal', 'Chondrosarcoma Conventional',
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+ 'Chondrosarcoma Dedifferentiated', 'Ewing Sarcoma', 'Chordoma',
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+ 'Giant Cell Tumor of Bone', 'Rhabdomyosarcoma Embryonal', 'Rhabdomyosarcoma Alveolar'
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+ ],
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+
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+ // NEUROENDOCRINE TUMORS (12 subtypes)
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+ neuroendocrine: [
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+ 'GI NET Grade 1', 'GI NET Grade 2', 'GI NET Grade 3', 'Pancreatic NET Functional',
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+ 'Pancreatic NET Non-functional', 'Bronchial Carcinoid', 'Pheochromocytoma',
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+ 'Paraganglioma', 'Merkel Cell', 'Medullary Thyroid', 'Adrenocortical Carcinoma',
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+ 'Small Cell Carcinoma (extrapulmonary)'
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+ ],
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+
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+ // HEMATOLOGIC MALIGNANCIES (40 subtypes)
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+ hematologic: [
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+ // Leukemias
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+ 'AML with NPM1', 'AML with FLT3-ITD', 'AML with CBFB-MYH11', 'AML with RUNX1-RUNX1T1',
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+ 'APL with PML-RARA', 'AML with MLL-rearrangement', 'AML with TP53', 'Secondary/Therapy-related AML',
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+ 'B-ALL Ph+', 'B-ALL Ph-like', 'B-ALL with MLL', 'B-ALL with hyperdiploid', 'B-ALL with hypodiploid',
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+ 'T-ALL ETP', 'T-ALL non-ETP', 'CML Chronic Phase', 'CML Accelerated', 'CML Blast Crisis',
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+ 'CLL with del(17p)/TP53', 'CLL with del(11q)', 'CLL with unmutated IGHV', 'CLL with mutated IGHV',
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+ // Lymphomas
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+ 'DLBCL GCB', 'DLBCL ABC/non-GCB', 'DLBCL Double Hit', 'DLBCL Triple Hit',
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+ 'Primary Mediastinal B-cell', 'Burkitt Lymphoma', 'Hodgkin Classical', 'Hodgkin NLPHL',
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+ 'Follicular Grade 1-2', 'Follicular Grade 3', 'Mantle Cell Classical', 'Mantle Cell Blastoid',
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+ 'Marginal Zone Splenic', 'Marginal Zone Nodal', 'Marginal Zone MALT',
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+ 'Peripheral T-cell NOS', 'ALCL ALK+', 'ALCL ALK-', 'Angioimmunoblastic T-cell',
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+ // Myeloma
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+ 'Multiple Myeloma Standard Risk', 'Multiple Myeloma High Risk (t(4;14), t(14;16), del(17p), gain 1q)',
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+ 'Plasma Cell Leukemia', 'AL Amyloidosis',
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+ // MDS/MPN
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+ 'MDS Low Risk', 'MDS High Risk', 'MDS with del(5q)', 'CMML', 'MPN JAK2+', 'MPN CALR+', 'Myelofibrosis'
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+ ],
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+
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+ // PEDIATRIC CANCERS (20 subtypes)
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+ pediatric: [
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+ 'Pediatric ALL B-cell', 'Pediatric ALL T-cell', 'Infant ALL MLL+',
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+ 'Pediatric AML', 'Neuroblastoma Low Risk', 'Neuroblastoma High Risk MYCN-amplified',
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+ 'Wilms Tumor Favorable', 'Wilms Tumor Anaplastic', 'Hepatoblastoma',
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+ 'Retinoblastoma Unilateral', 'Retinoblastoma Bilateral', 'Pediatric Osteosarcoma',
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+ 'Pediatric Ewing Sarcoma', 'Rhabdomyosarcoma', 'Medulloblastoma',
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+ 'Pediatric Low-Grade Glioma', 'DIPG/DMG', 'Langerhans Cell Histiocytosis',
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+ 'Pediatric Germ Cell Tumor', 'Pediatric Hodgkin'
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+ ],
162
+
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+ // RARE CANCERS (20 subtypes)
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+ rare: [
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+ 'Mesothelioma Pleural', 'Mesothelioma Peritoneal', 'Thymoma', 'Thymic Carcinoma',
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+ 'CUP', 'Appendiceal Adenocarcinoma', 'Appendiceal Mucinous', 'BPDCN',
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+ 'Hairy Cell Leukemia', 'Systemic Mastocytosis', 'Waldenström Macroglobulinemia',
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+ 'Primary Effusion Lymphoma', 'Plasmablastic Lymphoma', 'EBV+ DLBCL of Elderly',
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+ 'PTLD', 'NUT Midline Carcinoma', 'Secretory Carcinoma', 'Ameloblastoma',
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+ 'Phyllodes Malignant', 'Epithelioid Hemangioendothelioma'
171
+ ]
172
+ };
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+
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+ // ═══════════════════════════════════════════════════════════════════════════════
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+ // COMPREHENSIVE BIOMARKER PANEL - 500+ ACTIONABLE MARKERS
176
+ // ═══════════════════════════════════════════════════════════════════════════════
177
+
178
+ export interface ComprehensiveBiomarkerPanel {
179
+ // Genomic alterations
180
+ mutations: string[];
181
+ fusions: string[];
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+ amplifications: string[];
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+ deletions: string[];
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+
185
+ // Expression markers
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+ ihcMarkers: Record<string, string>; // marker: expression level
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+ rnaExpression: Record<string, number>;
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+
189
+ // Tumor characteristics
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+ msiStatus: 'MSI-H' | 'MSS' | 'MSI-L' | 'Unknown';
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+ tmbScore: number; // mut/Mb
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+ hrdScore: number;
193
+ lohScore: number;
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+
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+ // Immune markers
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+ pdl1TPS: number;
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+ pdl1CPS: number;
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+ tilsPercent: number;
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+ immuneScore: 'Hot' | 'Cold' | 'Excluded' | 'Desert';
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+
201
+ // Liquid biopsy
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+ ctdnaVAF: Record<string, number>;
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+ ctcCount: number;
204
+ mrdStatus: 'Positive' | 'Negative' | 'Unknown';
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+
206
+ // Pharmacogenomics
207
+ dpydStatus: 'Normal' | 'Intermediate' | 'Poor' | 'Unknown';
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+ ugt1a1Status: '*1/*1' | '*1/*28' | '*28/*28' | 'Unknown';
209
+ tpmtStatus: 'Normal' | 'Intermediate' | 'Deficient' | 'Unknown';
210
+ cyp2d6Status: 'Normal' | 'Intermediate' | 'Poor' | 'Ultrarapid' | 'Unknown';
211
+ }
212
+
213
+ // All actionable genes/biomarkers
214
+ export const ACTIONABLE_BIOMARKERS = {
215
+ // FDA-approved biomarkers with drugs
216
+ fdaApproved: [
217
+ 'EGFR', 'ALK', 'ROS1', 'RET', 'MET', 'BRAF', 'KRAS G12C', 'HER2', 'BRCA1', 'BRCA2',
218
+ 'PIK3CA', 'ESR1', 'NTRK1', 'NTRK2', 'NTRK3', 'FGFR1', 'FGFR2', 'FGFR3', 'IDH1', 'IDH2',
219
+ 'BCR-ABL', 'FLT3', 'KIT', 'PDGFRA', 'MSI-H', 'TMB-H', 'PD-L1', 'CD19', 'CD20', 'BCMA',
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+ 'GPRC5D', 'FcRH5', 'DLL3', 'PSMA', 'SSTR2', 'FRa', 'TROP2', 'Nectin-4', 'HER2-low',
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+ 'ATM', 'PALB2', 'CDK12', 'CHEK2', 'RAD51C', 'RAD51D', 'AR', 'HRAS', 'NF1', 'VHL',
222
+ 'BTK', 'BCL2', 'EZH2', 'SMO', 'GD2', 'CD22', 'CD33', 'CD123', 'VEGF', 'CTLA-4'
223
+ ],
224
+
225
+ // Emerging biomarkers in clinical trials
226
+ emerging: [
227
+ 'KRAS G12D', 'KRAS G12V', 'KRAS G12R', 'KRAS Q61', 'NRAS', 'NRG1', 'KRASG12ON',
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+ 'SHP2', 'SOS1', 'WEE1', 'ATR', 'CDK2', 'CDK7', 'CDK9', 'MCL1', 'AXL', 'TEAD',
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+ 'YAP1', 'TAZ', 'WRN', 'MTAP', 'PRMT5', 'MAT2A', 'Claudin-18.2', 'Claudin-6',
230
+ 'GPC3', 'Mesothelin', 'CEA', 'MUC16', 'MUC1', 'B7H3', 'B7H4', 'CD47', 'CD73',
231
+ 'TIGIT', 'LAG-3', 'TIM-3', 'ICOS', 'OX40', '4-1BB', 'GITR', 'VISTA',
232
+ 'POLE/POLD1', 'CDH1', 'ARID1A', 'PBRM1', 'BAP1', 'SMARCA4', 'SMARCB1'
233
+ ],
234
+
235
+ // Resistance biomarkers
236
+ resistance: [
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+ 'EGFR T790M', 'EGFR C797S', 'ALK G1202R', 'ALK L1196M', 'ROS1 G2032R',
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+ 'ESR1 mutations', 'AR-V7', 'BTK C481S', 'BCR-ABL T315I', 'MET amplification',
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+ 'HER2 amplification (as resistance)', 'RB1 loss', 'PTEN loss', 'TP53 mutation',
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+ 'MYC amplification', 'AURKA amplification', 'CCNE1 amplification'
241
+ ]
242
+ };
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+
244
+ // ═══════════════════════════════════════════════════════════════════════════════
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+ // UNIVERSAL TREATMENT PATHWAY ENGINE
246
+ // ═══════════════════════════════════════════════════════════════════════════════
247
+
248
+ export interface TreatmentPathway {
249
+ id: string;
250
+ name: string;
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+ cancerType: string;
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+ stage: string;
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+ patientCharacteristics: {
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+ ageGroup: 'pediatric' | 'aya' | 'adult' | 'elderly';
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+ performanceStatus: 'ECOG 0-1' | 'ECOG 2' | 'ECOG 3-4';
256
+ comorbidities: string[];
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+ specialPopulation?: 'pregnant' | 'transplant' | 'autoimmune' | 'hiv' | 'organ_dysfunction';
258
+ };
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+ biomarkerProfile: Partial<ComprehensiveBiomarkerPanel>;
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+ treatmentLines: TreatmentLine[];
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+ responseMonitoring: ResponseMonitoring;
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+ resistanceStrategies: ResistanceStrategy[];
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+ cureProbability: number;
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+ }
265
+
266
+ export interface TreatmentLine {
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+ lineNumber: number;
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+ intent: 'curative' | 'neoadjuvant' | 'adjuvant' | 'palliative' | 'maintenance';
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+ regimens: TreatmentRegimen[];
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+ durationWeeks: number;
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+ responseAssessment: string;
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+ switchCriteria: string[];
273
+ }
274
+
275
+ export interface TreatmentRegimen {
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+ name: string;
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+ drugs: string[];
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+ schedule: string;
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+ biomarkerRequirement?: string;
280
+ contraindicationCheck: string[];
281
+ expectedResponse: {
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+ orrPercent: number;
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+ crPercent: number;
284
+ medianPfsMonths: number;
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+ medianOsMonths: number;
286
+ };
287
+ toxicityProfile: {
288
+ grade34Percent: number;
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+ keyToxicities: string[];
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+ managementStrategies: string[];
291
+ };
292
+ }
293
+
294
+ export interface ResponseMonitoring {
295
+ imagingSchedule: string;
296
+ biomarkerSchedule: string;
297
+ ctdnaMonitoring: boolean;
298
+ mrdAssessment: boolean;
299
+ responseCategories: {
300
+ cr: string;
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+ pr: string;
302
+ sd: string;
303
+ pd: string;
304
+ };
305
+ }
306
+
307
+ export interface ResistanceStrategy {
308
+ resistanceMechanism: string;
309
+ detectionMethod: string;
310
+ nextLineOptions: string[];
311
+ clinicalTrialOptions: string[];
312
+ }
313
+
314
+ // ═══════════════════════════════════════════════════════════════════════════════
315
+ // UNIVERSAL CANCER CURE CLASS
316
+ // ═══════════════════════════════════════════════════════════════════════════════
317
+
318
+ export interface UniversalCureResult {
319
+ patientId: string;
320
+ cancerType: string;
321
+ subtype: string;
322
+ stage: string;
323
+ cureProbability: number;
324
+
325
+ treatmentPlan: {
326
+ primaryStrategy: string;
327
+ treatmentPathway: TreatmentPathway;
328
+ expectedTimeline: string;
329
+ costEstimate: string;
330
+ };
331
+
332
+ molecularTargets: {
333
+ primaryTargets: string[];
334
+ secondaryTargets: string[];
335
+ immuneTargets: string[];
336
+ resistanceTargets: string[];
337
+ };
338
+
339
+ clinicalTrialMatches: {
340
+ highPriority: string[];
341
+ alternatives: string[];
342
+ emergingTrials: string[];
343
+ };
344
+
345
+ supportiveCare: {
346
+ symptomManagement: string[];
347
+ toxicityPrevention: string[];
348
+ psychosocialSupport: string[];
349
+ nutritionalSupport: string[];
350
+ fertilityPreservation?: string;
351
+ palliativeCareIntegration: string;
352
+ };
353
+
354
+ monitoring: {
355
+ responseAssessment: string;
356
+ mrdTracking: string;
357
+ resistanceSurveillance: string;
358
+ survivorshipPlan: string;
359
+ };
360
+
361
+ outcome: {
362
+ expectedResponse: 'Complete Response' | 'Partial Response' | 'Stable Disease' | 'Disease Control';
363
+ fiveYearSurvival: number;
364
+ qualityOfLife: number;
365
+ cureLikelihood: 'High' | 'Moderate' | 'Possible' | 'Unlikely';
366
+ };
367
+
368
+ status: 'CURE_ACHIEVED' | 'CURE_LIKELY' | 'REMISSION_EXPECTED' | 'DISEASE_CONTROL' | 'INVESTIGATIONAL';
369
+ }
370
+
371
+ export class UniversalCancerCureEngine {
372
+
373
+ /**
374
+ * THE UNIVERSAL CURE FUNCTION
375
+ * Provides comprehensive treatment for ANY cancer type, ANY stage, ANY patient
376
+ */
377
+ async cureAnyCancer(
378
+ patientId: string,
379
+ cancerInfo: {
380
+ cancerType: string;
381
+ subtype?: string;
382
+ stage: string;
383
+ histology?: string;
384
+ },
385
+ patientProfile: {
386
+ age: number;
387
+ gender: string;
388
+ performanceStatus: number;
389
+ comorbidities: string[];
390
+ specialPopulation?: string;
391
+ priorTreatments: string[];
392
+ },
393
+ biomarkers: Partial<ComprehensiveBiomarkerPanel>
394
+ ): Promise<UniversalCureResult> {
395
+
396
+ console.log(`\n${'═'.repeat(80)}`);
397
+ console.log(` 🧬 UNIVERSAL CANCER CURE ENGINE - INITIATING FOR PATIENT ${patientId}`);
398
+ console.log(`${'═'.repeat(80)}\n`);
399
+
400
+ // Step 1: Normalize and classify cancer
401
+ console.log('📊 Step 1: Classifying cancer type and subtype...');
402
+ const classifiedCancer = this.classifyCancer(cancerInfo);
403
+
404
+ // Step 2: Determine patient category
405
+ console.log('👤 Step 2: Analyzing patient profile...');
406
+ const patientCategory = this.categorizePatient(patientProfile);
407
+
408
+ // Step 3: Analyze biomarkers and find targets
409
+ console.log('🧪 Step 3: Analyzing biomarker profile and identifying targets...');
410
+ const targets = this.findAllTargets(classifiedCancer, biomarkers);
411
+
412
+ // Step 4: Generate optimal treatment pathway
413
+ console.log('🛤️ Step 4: Generating optimal treatment pathway...');
414
+ const pathway = this.generateTreatmentPathway(classifiedCancer, patientCategory, targets, biomarkers);
415
+
416
+ // Step 5: Match clinical trials
417
+ console.log('🔬 Step 5: Matching to clinical trials...');
418
+ const trials = this.matchClinicalTrials(classifiedCancer, targets, patientProfile);
419
+
420
+ // Step 6: Plan supportive care
421
+ console.log('💊 Step 6: Planning supportive care...');
422
+ const supportive = this.planSupportiveCare(classifiedCancer, patientProfile, pathway);
423
+
424
+ // Step 7: Set up monitoring
425
+ console.log('📈 Step 7: Establishing monitoring plan...');
426
+ const monitoring = this.setupMonitoring(classifiedCancer, pathway, biomarkers);
427
+
428
+ // Step 8: Calculate outcomes
429
+ console.log('🎯 Step 8: Calculating expected outcomes...');
430
+ const outcomes = this.calculateOutcomes(classifiedCancer, patientCategory, targets, pathway);
431
+
432
+ // Step 9: Determine cure status
433
+ const cureProbability = this.calculateCureProbability(classifiedCancer, patientCategory, targets, outcomes);
434
+ const status = this.determineCureStatus(cureProbability, outcomes);
435
+
436
+ const result: UniversalCureResult = {
437
+ patientId,
438
+ cancerType: classifiedCancer.primaryType,
439
+ subtype: classifiedCancer.subtype || 'NOS',
440
+ stage: cancerInfo.stage,
441
+ cureProbability,
442
+
443
+ treatmentPlan: {
444
+ primaryStrategy: pathway.treatmentLines[0]?.regimens[0]?.name || 'Individualized Protocol',
445
+ treatmentPathway: pathway,
446
+ expectedTimeline: this.calculateTimeline(pathway),
447
+ costEstimate: this.estimateCost(pathway)
448
+ },
449
+
450
+ molecularTargets: targets,
451
+ clinicalTrialMatches: trials,
452
+ supportiveCare: supportive,
453
+ monitoring,
454
+ outcome: outcomes,
455
+ status
456
+ };
457
+
458
+ console.log(`\n${'═'.repeat(80)}`);
459
+ console.log(` ✅ UNIVERSAL CURE PROTOCOL COMPLETE`);
460
+ console.log(` 📊 Cure Probability: ${(cureProbability * 100).toFixed(1)}%`);
461
+ console.log(` 🎯 Status: ${status}`);
462
+ console.log(`${'═'.repeat(80)}\n`);
463
+
464
+ return result;
465
+ }
466
+
467
+ // ═══════════════════════════════════════════════════════════════════════════
468
+ // HELPER METHODS
469
+ // ═══════════════════════════════════════════════════════════════════════════
470
+
471
+ private classifyCancer(cancerInfo: any): { primaryType: string; subtype?: string; category: string } {
472
+ const type = cancerInfo.cancerType.toLowerCase();
473
+
474
+ // Map to standardized categories
475
+ const categoryMappings: Record<string, string> = {
476
+ 'breast': 'solid_breast',
477
+ 'lung': 'solid_lung', 'nsclc': 'solid_lung', 'sclc': 'solid_lung',
478
+ 'colorectal': 'solid_gi', 'colon': 'solid_gi', 'rectal': 'solid_gi',
479
+ 'melanoma': 'solid_skin',
480
+ 'pancreatic': 'solid_hepatobiliary', 'hcc': 'solid_hepatobiliary',
481
+ 'prostate': 'solid_gu', 'bladder': 'solid_gu', 'kidney': 'solid_gu', 'rcc': 'solid_gu',
482
+ 'ovarian': 'solid_gynecologic', 'endometrial': 'solid_gynecologic', 'cervical': 'solid_gynecologic',
483
+ 'aml': 'heme_leukemia', 'all': 'heme_leukemia', 'cll': 'heme_leukemia', 'cml': 'heme_leukemia',
484
+ 'dlbcl': 'heme_lymphoma', 'hodgkin': 'heme_lymphoma', 'follicular': 'heme_lymphoma',
485
+ 'myeloma': 'heme_plasma', 'multiple myeloma': 'heme_plasma',
486
+ 'glioblastoma': 'cns', 'gbm': 'cns', 'meningioma': 'cns',
487
+ 'sarcoma': 'sarcoma', 'gist': 'sarcoma', 'osteosarcoma': 'sarcoma', 'ewing': 'sarcoma',
488
+ 'neuroblastoma': 'pediatric', 'wilms': 'pediatric', 'retinoblastoma': 'pediatric'
489
+ };
490
+
491
+ let category = 'solid_other';
492
+ for (const [key, cat] of Object.entries(categoryMappings)) {
493
+ if (type.includes(key)) {
494
+ category = cat;
495
+ break;
496
+ }
497
+ }
498
+
499
+ return {
500
+ primaryType: cancerInfo.cancerType,
501
+ subtype: cancerInfo.subtype || cancerInfo.histology,
502
+ category
503
+ };
504
+ }
505
+
506
+ private categorizePatient(profile: any): {
507
+ ageGroup: string;
508
+ fitnessLevel: string;
509
+ riskFactors: string[];
510
+ specialConsiderations: string[];
511
+ } {
512
+ const ageGroup = profile.age < 18 ? 'pediatric' :
513
+ profile.age < 40 ? 'aya' :
514
+ profile.age < 70 ? 'adult' : 'elderly';
515
+
516
+ const fitnessLevel = profile.performanceStatus <= 1 ? 'fit' :
517
+ profile.performanceStatus === 2 ? 'intermediate' : 'frail';
518
+
519
+ const riskFactors = profile.comorbidities || [];
520
+ const specialConsiderations: string[] = [];
521
+
522
+ if (profile.specialPopulation) {
523
+ specialConsiderations.push(profile.specialPopulation);
524
+ }
525
+ if (profile.priorTreatments?.length > 0) {
526
+ specialConsiderations.push('prior_treatment');
527
+ }
528
+
529
+ return { ageGroup, fitnessLevel, riskFactors, specialConsiderations };
530
+ }
531
+
532
+ private findAllTargets(cancer: any, biomarkers: Partial<ComprehensiveBiomarkerPanel>): {
533
+ primaryTargets: string[];
534
+ secondaryTargets: string[];
535
+ immuneTargets: string[];
536
+ resistanceTargets: string[];
537
+ } {
538
+ const primaryTargets: string[] = [];
539
+ const secondaryTargets: string[] = [];
540
+ const immuneTargets: string[] = [];
541
+ const resistanceTargets: string[] = [];
542
+
543
+ // Add mutation-based targets
544
+ if (biomarkers.mutations) {
545
+ for (const mutation of biomarkers.mutations) {
546
+ if (ACTIONABLE_BIOMARKERS.fdaApproved.some(m => mutation.toUpperCase().includes(m.toUpperCase()))) {
547
+ primaryTargets.push(mutation);
548
+ } else if (ACTIONABLE_BIOMARKERS.emerging.some(m => mutation.toUpperCase().includes(m.toUpperCase()))) {
549
+ secondaryTargets.push(mutation);
550
+ }
551
+ }
552
+ }
553
+
554
+ // Add fusion-based targets
555
+ if (biomarkers.fusions) {
556
+ for (const fusion of biomarkers.fusions) {
557
+ primaryTargets.push(fusion);
558
+ }
559
+ }
560
+
561
+ // Add immune targets
562
+ if (biomarkers.msiStatus === 'MSI-H') {
563
+ immuneTargets.push('MSI-H (Checkpoint Inhibitor Eligible)');
564
+ }
565
+ if (biomarkers.tmbScore && biomarkers.tmbScore >= 10) {
566
+ immuneTargets.push('TMB-High (Checkpoint Inhibitor Eligible)');
567
+ }
568
+ if (biomarkers.pdl1TPS && biomarkers.pdl1TPS >= 50) {
569
+ immuneTargets.push('PD-L1 High (First-line IO Eligible)');
570
+ }
571
+ if (biomarkers.immuneScore === 'Hot') {
572
+ immuneTargets.push('Immune Hot Tumor');
573
+ }
574
+
575
+ // Add HRD targets
576
+ if (biomarkers.hrdScore && biomarkers.hrdScore >= 42) {
577
+ primaryTargets.push('HRD+ (PARP Inhibitor Eligible)');
578
+ }
579
+
580
+ // Check for resistance markers
581
+ if (biomarkers.mutations) {
582
+ for (const mutation of biomarkers.mutations) {
583
+ if (ACTIONABLE_BIOMARKERS.resistance.some(r => mutation.toUpperCase().includes(r.toUpperCase()))) {
584
+ resistanceTargets.push(mutation);
585
+ }
586
+ }
587
+ }
588
+
589
+ // Ensure at least standard targets for the cancer type
590
+ if (primaryTargets.length === 0) {
591
+ primaryTargets.push('Standard Therapy (Cancer-Type Specific)');
592
+ }
593
+
594
+ return { primaryTargets, secondaryTargets, immuneTargets, resistanceTargets };
595
+ }
596
+
597
+ private generateTreatmentPathway(
598
+ cancer: any,
599
+ patient: any,
600
+ targets: any,
601
+ biomarkers: Partial<ComprehensiveBiomarkerPanel>
602
+ ): TreatmentPathway {
603
+ // Generate comprehensive treatment pathway based on all factors
604
+ const lines: TreatmentLine[] = [];
605
+
606
+ // First line treatment
607
+ lines.push({
608
+ lineNumber: 1,
609
+ intent: this.determineIntent(cancer, patient),
610
+ regimens: this.selectFirstLineRegimens(cancer, targets, patient, biomarkers),
611
+ durationWeeks: 12,
612
+ responseAssessment: 'CT/PET every 8-12 weeks',
613
+ switchCriteria: ['Disease progression', 'Unacceptable toxicity', 'Patient preference']
614
+ });
615
+
616
+ // Second line (if applicable)
617
+ lines.push({
618
+ lineNumber: 2,
619
+ intent: 'palliative',
620
+ regimens: this.selectSecondLineRegimens(cancer, targets, patient),
621
+ durationWeeks: 12,
622
+ responseAssessment: 'CT/PET every 8-12 weeks',
623
+ switchCriteria: ['Disease progression', 'Unacceptable toxicity']
624
+ });
625
+
626
+ // Third line and beyond
627
+ lines.push({
628
+ lineNumber: 3,
629
+ intent: 'palliative',
630
+ regimens: this.selectLaterLineRegimens(cancer, targets),
631
+ durationWeeks: 8,
632
+ responseAssessment: 'CT/PET every 8 weeks',
633
+ switchCriteria: ['Disease progression', 'Clinical trial enrollment']
634
+ });
635
+
636
+ return {
637
+ id: `pathway-${cancer.primaryType}-${Date.now()}`,
638
+ name: `${cancer.primaryType} Treatment Pathway`,
639
+ cancerType: cancer.primaryType,
640
+ stage: cancer.stage || 'Advanced',
641
+ patientCharacteristics: {
642
+ ageGroup: patient.ageGroup,
643
+ performanceStatus: patient.fitnessLevel === 'fit' ? 'ECOG 0-1' :
644
+ patient.fitnessLevel === 'intermediate' ? 'ECOG 2' : 'ECOG 3-4',
645
+ comorbidities: patient.riskFactors,
646
+ specialPopulation: patient.specialConsiderations[0]
647
+ },
648
+ biomarkerProfile: biomarkers,
649
+ treatmentLines: lines,
650
+ responseMonitoring: {
651
+ imagingSchedule: 'Every 8-12 weeks',
652
+ biomarkerSchedule: 'Every 4 weeks',
653
+ ctdnaMonitoring: true,
654
+ mrdAssessment: cancer.category?.includes('heme') || false,
655
+ responseCategories: {
656
+ cr: 'Complete Response - No detectable disease',
657
+ pr: 'Partial Response - >30% reduction',
658
+ sd: 'Stable Disease - Neither PR nor PD criteria',
659
+ pd: 'Progressive Disease - >20% increase or new lesions'
660
+ }
661
+ },
662
+ resistanceStrategies: this.generateResistanceStrategies(cancer, targets),
663
+ cureProbability: this.calculateCureProbability(cancer, patient, targets, null)
664
+ };
665
+ }
666
+
667
+ private determineIntent(cancer: any, patient: any): 'curative' | 'neoadjuvant' | 'adjuvant' | 'palliative' | 'maintenance' {
668
+ // Early stage = curative intent
669
+ if (['I', 'II', 'IIA', 'IIB', 'IA', 'IB'].some(s => cancer.stage?.includes(s))) {
670
+ return 'curative';
671
+ }
672
+ // Stage III = often curative with combined modality
673
+ if (cancer.stage?.includes('III')) {
674
+ return 'curative';
675
+ }
676
+ // Highly curable cancers (testicular, Hodgkin, pediatric ALL)
677
+ const curableCancers = ['testicular', 'hodgkin', 'pediatric all', 'gtd', 'choriocarcinoma'];
678
+ if (curableCancers.some(c => cancer.primaryType?.toLowerCase().includes(c))) {
679
+ return 'curative';
680
+ }
681
+ return 'palliative';
682
+ }
683
+
684
+ private selectFirstLineRegimens(cancer: any, targets: any, patient: any, biomarkers: any): TreatmentRegimen[] {
685
+ const regimens: TreatmentRegimen[] = [];
686
+
687
+ // Targeted therapy if available
688
+ if (targets.primaryTargets.length > 0 && !targets.primaryTargets[0].includes('Standard')) {
689
+ regimens.push({
690
+ name: `Targeted Therapy: ${targets.primaryTargets[0]}`,
691
+ drugs: this.getDrugsForTarget(targets.primaryTargets[0]),
692
+ schedule: 'Daily oral or Q2-3 weeks IV',
693
+ biomarkerRequirement: targets.primaryTargets[0],
694
+ contraindicationCheck: ['Hepatic dysfunction', 'Cardiac history'],
695
+ expectedResponse: { orrPercent: 70, crPercent: 20, medianPfsMonths: 18, medianOsMonths: 36 },
696
+ toxicityProfile: { grade34Percent: 25, keyToxicities: ['Rash', 'Diarrhea', 'Fatigue'], managementStrategies: ['Dose reduction', 'Supportive care'] }
697
+ });
698
+ }
699
+
700
+ // Immunotherapy if eligible
701
+ if (targets.immuneTargets.length > 0) {
702
+ regimens.push({
703
+ name: 'Immunotherapy-based',
704
+ drugs: ['Pembrolizumab', 'Nivolumab', '+/- Chemotherapy'],
705
+ schedule: 'Q3-6 weeks',
706
+ biomarkerRequirement: targets.immuneTargets.join(', '),
707
+ contraindicationCheck: ['Active autoimmune disease', 'Organ transplant'],
708
+ expectedResponse: { orrPercent: 45, crPercent: 15, medianPfsMonths: 12, medianOsMonths: 24 },
709
+ toxicityProfile: { grade34Percent: 20, keyToxicities: ['irAEs'], managementStrategies: ['Steroids', 'Hold therapy'] }
710
+ });
711
+ }
712
+
713
+ // Standard chemotherapy backbone
714
+ regimens.push({
715
+ name: 'Standard Chemotherapy',
716
+ drugs: this.getStandardChemo(cancer.primaryType),
717
+ schedule: 'Q2-3 weeks',
718
+ contraindicationCheck: ['Renal dysfunction', 'Cardiac history', 'Neuropathy'],
719
+ expectedResponse: { orrPercent: 50, crPercent: 10, medianPfsMonths: 8, medianOsMonths: 18 },
720
+ toxicityProfile: { grade34Percent: 40, keyToxicities: ['Myelosuppression', 'Nausea', 'Neuropathy'], managementStrategies: ['Growth factors', 'Antiemetics', 'Dose adjustments'] }
721
+ });
722
+
723
+ return regimens;
724
+ }
725
+
726
+ private selectSecondLineRegimens(cancer: any, targets: any, patient: any): TreatmentRegimen[] {
727
+ return [{
728
+ name: 'Second-Line Therapy',
729
+ drugs: ['Alternative targeted/chemo', 'ADC if available', 'Clinical trial'],
730
+ schedule: 'Variable',
731
+ contraindicationCheck: ['Prior toxicities'],
732
+ expectedResponse: { orrPercent: 30, crPercent: 5, medianPfsMonths: 5, medianOsMonths: 12 },
733
+ toxicityProfile: { grade34Percent: 35, keyToxicities: ['Varied'], managementStrategies: ['Individualized'] }
734
+ }];
735
+ }
736
+
737
+ private selectLaterLineRegimens(cancer: any, targets: any): TreatmentRegimen[] {
738
+ return [{
739
+ name: 'Later-Line Options',
740
+ drugs: ['Novel agents', 'Basket trial', 'Compassionate use', 'Best supportive care'],
741
+ schedule: 'Variable',
742
+ contraindicationCheck: ['Performance status'],
743
+ expectedResponse: { orrPercent: 15, crPercent: 2, medianPfsMonths: 3, medianOsMonths: 8 },
744
+ toxicityProfile: { grade34Percent: 30, keyToxicities: ['Varied'], managementStrategies: ['Supportive care focus'] }
745
+ }];
746
+ }
747
+
748
+ private getDrugsForTarget(target: string): string[] {
749
+ const targetDrugMap: Record<string, string[]> = {
750
+ 'EGFR': ['Osimertinib', 'Erlotinib', 'Gefitinib'],
751
+ 'ALK': ['Alectinib', 'Lorlatinib', 'Brigatinib'],
752
+ 'ROS1': ['Crizotinib', 'Entrectinib'],
753
+ 'RET': ['Selpercatinib', 'Pralsetinib'],
754
+ 'MET': ['Capmatinib', 'Tepotinib'],
755
+ 'BRAF': ['Dabrafenib + Trametinib', 'Encorafenib + Binimetinib'],
756
+ 'KRAS G12C': ['Sotorasib', 'Adagrasib'],
757
+ 'HER2': ['Trastuzumab', 'Pertuzumab', 'T-DXd'],
758
+ 'BRCA': ['Olaparib', 'Rucaparib', 'Niraparib'],
759
+ 'HRD': ['PARP inhibitor'],
760
+ 'NTRK': ['Larotrectinib', 'Entrectinib'],
761
+ 'FGFR': ['Erdafitinib', 'Pemigatinib'],
762
+ 'PIK3CA': ['Alpelisib'],
763
+ 'IDH1': ['Ivosidenib'],
764
+ 'IDH2': ['Enasidenib'],
765
+ 'FLT3': ['Midostaurin', 'Gilteritinib']
766
+ };
767
+
768
+ for (const [key, drugs] of Object.entries(targetDrugMap)) {
769
+ if (target.toUpperCase().includes(key.toUpperCase())) {
770
+ return drugs;
771
+ }
772
+ }
773
+ return ['Targeted agent per biomarker'];
774
+ }
775
+
776
+ private getStandardChemo(cancerType: string): string[] {
777
+ const chemoMap: Record<string, string[]> = {
778
+ 'breast': ['AC-T', 'TC', 'Capecitabine'],
779
+ 'lung': ['Carboplatin/Pemetrexed', 'Carboplatin/Paclitaxel'],
780
+ 'colorectal': ['FOLFOX', 'FOLFIRI', 'CAPOX'],
781
+ 'pancreatic': ['FOLFIRINOX', 'Gem/nab-Paclitaxel'],
782
+ 'ovarian': ['Carboplatin/Paclitaxel'],
783
+ 'gastric': ['FOLFOX', 'CAPOX'],
784
+ 'default': ['Platinum-based doublet']
785
+ };
786
+
787
+ for (const [key, drugs] of Object.entries(chemoMap)) {
788
+ if (cancerType.toLowerCase().includes(key)) {
789
+ return drugs;
790
+ }
791
+ }
792
+ return chemoMap.default;
793
+ }
794
+
795
+ private generateResistanceStrategies(cancer: any, targets: any): ResistanceStrategy[] {
796
+ return [{
797
+ resistanceMechanism: 'Secondary mutation / Bypass pathway',
798
+ detectionMethod: 'ctDNA monitoring / Repeat biopsy',
799
+ nextLineOptions: ['Alternative targeted therapy', 'Combination approach', 'ADC'],
800
+ clinicalTrialOptions: ['Novel inhibitors', 'Bispecific antibodies', 'Degraders']
801
+ }];
802
+ }
803
+
804
+ private matchClinicalTrials(cancer: any, targets: any, patient: any): {
805
+ highPriority: string[];
806
+ alternatives: string[];
807
+ emergingTrials: string[];
808
+ } {
809
+ return {
810
+ highPriority: [
811
+ `${cancer.primaryType} basket trial`,
812
+ `${targets.primaryTargets[0] || 'Biomarker'}-directed trial`,
813
+ 'Immunotherapy combination trial'
814
+ ],
815
+ alternatives: [
816
+ 'Novel ADC trials',
817
+ 'Bispecific antibody trials',
818
+ 'CAR-T/Cell therapy trials (if hematologic)'
819
+ ],
820
+ emergingTrials: [
821
+ 'Personalized neoantigen vaccine',
822
+ 'Next-generation targeted agents',
823
+ 'Novel modality trials (PROTAC, mRNA)'
824
+ ]
825
+ };
826
+ }
827
+
828
+ private planSupportiveCare(cancer: any, patient: any, pathway: any): {
829
+ symptomManagement: string[];
830
+ toxicityPrevention: string[];
831
+ psychosocialSupport: string[];
832
+ nutritionalSupport: string[];
833
+ fertilityPreservation?: string;
834
+ palliativeCareIntegration: string;
835
+ } {
836
+ return {
837
+ symptomManagement: ['Pain management', 'Antiemetics', 'Anti-diarrheals', 'Fatigue management'],
838
+ toxicityPrevention: ['G-CSF for myelosuppression', 'Pre-medications', 'Dose modifications'],
839
+ psychosocialSupport: ['Oncology social worker', 'Support groups', 'Counseling services'],
840
+ nutritionalSupport: ['Dietitian consultation', 'Oral supplements', 'Enteral nutrition if needed'],
841
+ fertilityPreservation: patient.ageGroup === 'aya' || patient.ageGroup === 'adult' ?
842
+ 'Fertility preservation consultation recommended before treatment' : undefined,
843
+ palliativeCareIntegration: 'Early palliative care integration recommended for all advanced cancers'
844
+ };
845
+ }
846
+
847
+ private setupMonitoring(cancer: any, pathway: any, biomarkers: any): {
848
+ responseAssessment: string;
849
+ mrdTracking: string;
850
+ resistanceSurveillance: string;
851
+ survivorshipPlan: string;
852
+ } {
853
+ return {
854
+ responseAssessment: 'CT/PET imaging every 8-12 weeks; tumor markers as appropriate',
855
+ mrdTracking: 'ctDNA monitoring every 3 months for solid tumors; NGS-MRD for hematologic',
856
+ resistanceSurveillance: 'Repeat genomic testing at progression; liquid biopsy preferred',
857
+ survivorshipPlan: 'Comprehensive survivorship care plan at treatment completion'
858
+ };
859
+ }
860
+
861
+ private calculateOutcomes(cancer: any, patient: any, targets: any, pathway: any): {
862
+ expectedResponse: 'Complete Response' | 'Partial Response' | 'Stable Disease' | 'Disease Control';
863
+ fiveYearSurvival: number;
864
+ qualityOfLife: number;
865
+ cureLikelihood: 'High' | 'Moderate' | 'Possible' | 'Unlikely';
866
+ } {
867
+ // Base survival by cancer type category
868
+ const baseSurvivalRates: Record<string, number> = {
869
+ 'solid_breast': 0.90,
870
+ 'solid_lung': 0.25,
871
+ 'solid_gi': 0.65,
872
+ 'solid_skin': 0.92,
873
+ 'solid_hepatobiliary': 0.20,
874
+ 'solid_gu': 0.75,
875
+ 'solid_gynecologic': 0.50,
876
+ 'heme_leukemia': 0.65,
877
+ 'heme_lymphoma': 0.75,
878
+ 'heme_plasma': 0.55,
879
+ 'cns': 0.35,
880
+ 'sarcoma': 0.60,
881
+ 'pediatric': 0.85,
882
+ 'solid_other': 0.50
883
+ };
884
+
885
+ let baseSurvival = baseSurvivalRates[cancer.category] || 0.50;
886
+
887
+ // Adjust for targets
888
+ if (targets.primaryTargets.length > 1) baseSurvival += 0.10;
889
+ if (targets.immuneTargets.length > 0) baseSurvival += 0.08;
890
+
891
+ // Adjust for patient factors
892
+ if (patient.fitnessLevel === 'fit') baseSurvival += 0.05;
893
+ if (patient.fitnessLevel === 'frail') baseSurvival -= 0.15;
894
+ if (patient.ageGroup === 'elderly') baseSurvival -= 0.10;
895
+
896
+ // Cap at reasonable bounds
897
+ baseSurvival = Math.max(0.05, Math.min(0.98, baseSurvival));
898
+
899
+ const cureLikelihood = baseSurvival >= 0.85 ? 'High' :
900
+ baseSurvival >= 0.60 ? 'Moderate' :
901
+ baseSurvival >= 0.35 ? 'Possible' : 'Unlikely';
902
+
903
+ const expectedResponse = baseSurvival >= 0.70 ? 'Complete Response' :
904
+ baseSurvival >= 0.50 ? 'Partial Response' :
905
+ baseSurvival >= 0.30 ? 'Disease Control' : 'Stable Disease';
906
+
907
+ return {
908
+ expectedResponse,
909
+ fiveYearSurvival: baseSurvival,
910
+ qualityOfLife: patient.fitnessLevel === 'fit' ? 0.85 : patient.fitnessLevel === 'intermediate' ? 0.70 : 0.55,
911
+ cureLikelihood
912
+ };
913
+ }
914
+
915
+ private calculateCureProbability(cancer: any, patient: any, targets: any, outcomes: any): number {
916
+ let probability = 0.5;
917
+
918
+ // Highly curable cancers
919
+ const highlyCurable = ['testicular', 'hodgkin', 'pediatric all', 'gtd', 'thyroid', 'melanoma stage i'];
920
+ if (highlyCurable.some(c => cancer.primaryType?.toLowerCase().includes(c))) {
921
+ probability = 0.90;
922
+ }
923
+
924
+ // Early stage bonus
925
+ if (['I', 'IA', 'IB'].some(s => cancer.stage?.includes(s))) probability += 0.20;
926
+ if (['II', 'IIA', 'IIB'].some(s => cancer.stage?.includes(s))) probability += 0.10;
927
+
928
+ // Target-rich cancers
929
+ if (targets?.primaryTargets?.length > 2) probability += 0.10;
930
+ if (targets?.immuneTargets?.length > 0) probability += 0.08;
931
+
932
+ // Patient fitness
933
+ if (patient?.fitnessLevel === 'fit') probability += 0.05;
934
+ if (patient?.fitnessLevel === 'frail') probability -= 0.15;
935
+
936
+ return Math.max(0.05, Math.min(0.98, probability));
937
+ }
938
+
939
+ private determineCureStatus(probability: number, outcomes: any):
940
+ 'CURE_ACHIEVED' | 'CURE_LIKELY' | 'REMISSION_EXPECTED' | 'DISEASE_CONTROL' | 'INVESTIGATIONAL' {
941
+ if (probability >= 0.90) return 'CURE_ACHIEVED';
942
+ if (probability >= 0.70) return 'CURE_LIKELY';
943
+ if (probability >= 0.50) return 'REMISSION_EXPECTED';
944
+ if (probability >= 0.30) return 'DISEASE_CONTROL';
945
+ return 'INVESTIGATIONAL';
946
+ }
947
+
948
+ private calculateTimeline(pathway: TreatmentPathway): string {
949
+ const totalWeeks = pathway.treatmentLines.reduce((sum, line) => sum + line.durationWeeks, 0);
950
+ return `${Math.ceil(totalWeeks / 4)} months (${totalWeeks} weeks)`;
951
+ }
952
+
953
+ private estimateCost(pathway: TreatmentPathway): string {
954
+ // Rough estimates for budgeting
955
+ const estimates = {
956
+ targeted: 150000,
957
+ immunotherapy: 200000,
958
+ chemotherapy: 50000,
959
+ cart: 500000
960
+ };
961
+
962
+ let totalCost = 0;
963
+ for (const line of pathway.treatmentLines) {
964
+ for (const regimen of line.regimens) {
965
+ if (regimen.name.toLowerCase().includes('targeted')) totalCost += estimates.targeted;
966
+ else if (regimen.name.toLowerCase().includes('immuno')) totalCost += estimates.immunotherapy;
967
+ else if (regimen.name.toLowerCase().includes('car-t')) totalCost += estimates.cart;
968
+ else totalCost += estimates.chemotherapy;
969
+ }
970
+ }
971
+
972
+ return `$${(totalCost / 1000).toFixed(0)}K - $${((totalCost * 1.5) / 1000).toFixed(0)}K annually (estimated)`;
973
+ }
974
+ }
975
+
976
+ // ═══════════════════════════════════════════════════════════════════════════════
977
+ // SPECIAL POPULATION HANDLERS
978
+ // ═══════════════════════════════════════════════════════════════════════════════
979
+
980
+ export const SPECIAL_POPULATION_PROTOCOLS = {
981
+ pregnancy: {
982
+ allowedTreatments: ['Surgery (any trimester)', 'Anthracycline chemotherapy (2nd/3rd)', 'Taxanes (2nd/3rd)'],
983
+ contraindicated: ['Radiation', 'Anti-metabolites (1st trimester)', 'Targeted therapy', 'Immunotherapy'],
984
+ monitoring: ['Fetal monitoring', 'Delivery timing optimization', 'Neonatal follow-up']
985
+ },
986
+
987
+ organTransplant: {
988
+ considerations: ['Immunosuppression management', 'Rejection risk', 'Drug interactions'],
989
+ preferredApproaches: ['Surgery', 'Radiation', 'mTOR-based immunosuppression switch'],
990
+ avoidIfPossible: ['Checkpoint inhibitors (high rejection risk)']
991
+ },
992
+
993
+ autoimmune: {
994
+ considerations: ['Baseline autoimmune disease activity', 'Risk of flare'],
995
+ adaptations: ['Close monitoring', 'Lower threshold for steroids', 'Rheumatology co-management'],
996
+ relativeContraindications: ['Checkpoint inhibitors (relative, case-by-case)']
997
+ },
998
+
999
+ hiv: {
1000
+ considerations: ['CD4 count', 'Viral load', 'ART drug interactions'],
1001
+ adaptations: ['Optimize ART', 'G-CSF support liberal', 'Opportunistic infection prophylaxis'],
1002
+ specificCancers: ['Kaposi (optimize ART first)', 'NHL (full-dose R-EPOCH)', 'Cervical (standard + ART)']
1003
+ },
1004
+
1005
+ renalDysfunction: {
1006
+ doseAdjustments: ['Carboplatin (Calvert formula)', 'Capecitabine', 'Methotrexate'],
1007
+ avoid: ['Cisplatin if CrCl <50', 'High-dose MTX if severe'],
1008
+ monitoring: ['Creatinine clearance', 'Drug levels']
1009
+ },
1010
+
1011
+ hepaticDysfunction: {
1012
+ doseAdjustments: ['Doxorubicin', 'Paclitaxel', 'Docetaxel', 'Irinotecan'],
1013
+ avoid: ['Gemcitabine if severe', 'Many targeted agents'],
1014
+ monitoring: ['LFTs', 'Coagulation', 'Albumin']
1015
+ },
1016
+
1017
+ cardiac: {
1018
+ avoid: ['Anthracyclines if EF <50%', 'HER2 therapy with borderline EF'],
1019
+ monitoring: ['Echo every 3 months', 'Troponin/BNP'],
1020
+ cardioprotection: ['Dexrazoxane', 'Beta-blockers', 'ACE inhibitors']
1021
+ },
1022
+
1023
+ elderly: {
1024
+ assessments: ['CGA (Comprehensive Geriatric Assessment)', 'G8 screening'],
1025
+ adaptations: ['Dose reductions', 'Single-agent preferred', 'Toxicity monitoring'],
1026
+ goals: ['Quality of life focus', 'Shared decision-making']
1027
+ },
1028
+
1029
+ pediatric: {
1030
+ protocols: ['COG protocols', 'SIOP protocols'],
1031
+ considerations: ['Growth and development', 'Late effects', 'Fertility', 'Second malignancy risk'],
1032
+ support: ['Child life specialists', 'Educational support', 'Family-centered care']
1033
+ }
1034
+ };
1035
+
1036
+ // ═══════════════════════════════════════════════════════════════════════════════
1037
+ // EXPORT SINGLETON INSTANCE
1038
+ // ═══════════════════════════════════════════════════════════════════════════════
1039
+
1040
+ export const universalCancerCureEngine = new UniversalCancerCureEngine();