@erosolaraijs/cure 2.1.0 → 2.2.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
package/dist/bin/cure.js CHANGED
@@ -19,7 +19,7 @@ import * as path from 'path';
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  import * as os from 'os';
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  import { CancerTreatmentCapabilityModule } from '../capabilities/cancerTreatmentCapability.js';
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  import { createRealWorldOncologyService } from '../orchestrator/realWorldOncology.js';
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- const VERSION = '2.1.0';
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+ const VERSION = '2.2.0';
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  const PACKAGE_NAME = '@erosolaraijs/cure';
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  const XAI_MODEL = 'grok-4-1-fast-reasoning';
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  const UPDATE_CHECK_INTERVAL = 24 * 60 * 60 * 1000; // 24 hours
@@ -1 +1 @@
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+ {"version":3,"file":"cancerTreatmentCapability.d.ts","sourceRoot":"","sources":["../../src/capabilities/cancerTreatmentCapability.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;GAqBG;AAGH,MAAM,MAAM,4BAA4B,GACpC,sBAAsB,GACtB,oBAAoB,GACpB,aAAa,GACb,gBAAgB,GAChB,oBAAoB,GACpB,iBAAiB,GACjB,eAAe,GACf,eAAe,GACf,eAAe,GACf,0BAA0B,GAC1B,aAAa,CAAC;AAElB,MAAM,WAAW,aAAa;IAC5B,EAAE,EAAE,MAAM,CAAC;IACX,IAAI,EAAE,SAAS,GAAG,4BAA4B,GAAG,kBAAkB,CAAC;IACpE,UAAU,EAAE,MAAM,CAAC;IACnB,YAAY,CAAC,EAAE;QACb,GAAG,EAAE,MAAM,CAAC;QACZ,MAAM,EAAE,MAAM,CAAC;QACf,SAAS,CAAC,EAAE,MAAM,CAAC;KACpB,CAAC;IACF,cAAc,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,GAAG,CAAC,CAAC;IACrC,QAAQ,CAAC,EAAE;QACT,SAAS,EAAE,MAAM,EAAE,CAAC;QACpB,UAAU,EAAE,MAAM,EAAE,CAAC;QACrB,kBAAkB,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;KAC7C,CAAC;CACH;AAED,MAAM,WAAW,wBAAwB;IACvC,EAAE,EAAE,MAAM,CAAC;IACX,IAAI,EAAE,4BAA4B,CAAC;IACnC,OAAO,EAAE,aAAa,CAAC;IACvB,UAAU,EAAE,MAAM,CAAC,MAAM,EAAE,GAAG,CAAC,CAAC;IAChC,aAAa,EAAE,MAAM,CAAC;IACtB,SAAS,EAAE,IAAI,CAAC;CACjB;AAED,MAAM,WAAW,qBAAqB;IACpC,WAAW,EAAE,MAAM,CAAC;IACpB,OAAO,EAAE,OAAO,CAAC;IACjB,OAAO,EAAE,MAAM,CAAC;IAChB,eAAe,EAAE,MAAM,EAAE,CAAC;IAC1B,SAAS,EAAE,MAAM,EAAE,CAAC;IACpB,SAAS,EAAE,IAAI,CAAC;CACjB;AAED,MAAM,WAAW,iBAAiB;IAChC,EAAE,EAAE,MAAM,CAAC;IACX,IAAI,EAAE,MAAM,CAAC;IACb,YAAY,EAAE,MAAM,GAAG,MAAM,GAAG,MAAM,GAAG,KAAK,GAAG,KAAK,GAAG,OAAO,CAAC;IACjE,UAAU,EAAE,MAAM,CAAC;IACnB,KAAK,EAAE,MAAM,CAAC;IACd,mBAAmB,EAAE,MAAM,EAAE,CAAC;IAC9B,aAAa,EAAE,MAAM,CAAC;IACtB,iBAAiB,EAAE,MAAM,EAAE,CAAC;IAC5B,UAAU,EAAE,MAAM,EAAE,CAAC;CACtB;AAGD,MAAM,WAAW,UAAU;IACzB,IAAI,EAAE,MAAM,CAAC;IACb,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,WAAW,EAAE,MAAM,EAAE,CAAC;IACtB,aAAa,EAAE,MAAM,EAAE,CAAC;IACxB,iBAAiB,EAAE,MAAM,CAAC;IAC1B,aAAa,EAAE,cAAc,GAAG,WAAW,GAAG,UAAU,GAAG,SAAS,GAAG,aAAa,CAAC;IACrF,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,oBAAoB,CAAC,EAAE,MAAM,EAAE,CAAC;CACjC;AAGD,MAAM,WAAW,qBAAqB;IACpC,EAAE,EAAE,MAAM,CAAC;IACX,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,sBAAsB,GAAG,OAAO,GAAG,gBAAgB,GAAG,kBAAkB,GAAG,iBAAiB,CAAC;IACnG,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,KAAK,EAAE,MAAM,EAAE,CAAC;IAChB,WAAW,EAAE,MAAM,EAAE,CAAC;IACtB,YAAY,EAAE,MAAM,CAAC;IACrB,mBAAmB,EAAE,MAAM,CAAC;IAC5B,UAAU,EAAE,MAAM,EAAE,CAAC;CACtB;AAGD,MAAM,WAAW,kBAAkB;IACjC,EAAE,EAAE,MAAM,CAAC;IACX,IAAI,EAAE,MAAM,CAAC;IACb,UAAU,EAAE,MAAM,EAAE,CAAC;IACrB,iBAAiB,EAAE,MAAM,CAAC;IAC1B,WAAW,EAAE,MAAM,EAAE,CAAC;IACtB,gBAAgB,EAAE,MAAM,CAAC;CAC1B;AAGD,MAAM,WAAW,gBAAgB;IAC/B,SAAS,EAAE,MAAM,CAAC;IAClB,UAAU,EAAE,MAAM,CAAC;IACnB,KAAK,EAAE,MAAM,CAAC;IACd,YAAY,EAAE,MAAM,CAAC;IACrB,UAAU,EAAE;QACV,OAAO,EAAE,MAAM,CAAC;QAChB,SAAS,EAAE,MAAM,EAAE,CAAC;QACpB,UAAU,EAAE,MAAM,EAAE,CAAC;KACtB,CAAC;IACF,WAAW,EAAE,UAAU,EAAE,CAAC;IAC1B,aAAa,CAAC,EAAE,qBAAqB,CAAC;IACtC,kBAAkB,CAAC,EAAE,kBAAkB,CAAC;IACxC,gBAAgB,EAAE;QAChB,YAAY,EAAE,MAAM,CAAC;QACrB,gBAAgB,EAAE,MAAM,CAAC;QACzB,aAAa,EAAE,MAAM,CAAC;QACtB,cAAc,EAAE,MAAM,CAAC;KACxB,CAAC;IACF,QAAQ,EAAE;QAAE,KAAK,EAAE,MAAM,CAAC;QAAC,QAAQ,EAAE,MAAM,CAAC;QAAC,UAAU,EAAE,MAAM,EAAE,CAAA;KAAE,EAAE,CAAC;IACtE,aAAa,EAAE,MAAM,EAAE,CAAC;IACxB,MAAM,EAAE,OAAO,GAAG,cAAc,GAAG,YAAY,GAAG,QAAQ,CAAC;CAC5D;AAED,qBAAa,+BAA+B;IAI1C,OAAO,CAAC,kBAAkB,CAy+BxB;IAKF,OAAO,CAAC,sBAAsB,CAgK5B;IAKF,OAAO,CAAC,oBAAoB,CAuJ1B;IAKF,OAAO,CAAC,kBAAkB,CAk2BxB;;IAMF,IAAI,QAAQ,IAAI;QAAE,EAAE,EAAE,MAAM,CAAC;QAAC,IAAI,EAAE,MAAM,CAAC;QAAC,WAAW,EAAE,MAAM,CAAC;QAAC,OAAO,EAAE,MAAM,CAAC;QAAC,QAAQ,EAAE,MAAM,CAAC;QAAC,IAAI,EAAE,MAAM,EAAE,CAAA;KAAE,CASnH;IAEK,cAAc,CAAC,SAAS,EAAE,MAAM,EAAE,eAAe,EAAE,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC;IAmCzE,mBAAmB,CAAC,SAAS,EAAE,MAAM,EAAE,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,GAAG,CAAC;IAwCzE,mBAAmB,CAAC,UAAU,EAAE,MAAM,EAAE,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,GAAG,CAAC;IA6C1E,UAAU,CAAC,SAAS,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,EAAE,cAAc,CAAC,EAAE;QACtF,SAAS,CAAC,EAAE,MAAM,EAAE,CAAC;QACrB,UAAU,CAAC,EAAE,MAAM,EAAE,CAAC;QACtB,SAAS,CAAC,EAAE,OAAO,GAAG,KAAK,CAAC;QAC5B,QAAQ,CAAC,EAAE,MAAM,GAAG,KAAK,CAAC;QAC1B,cAAc,CAAC,EAAE,MAAM,CAAC;QACxB,SAAS,CAAC,EAAE,OAAO,CAAC;KACrB,GAAG,OAAO,CAAC,gBAAgB,CAAC;IAgE7B,OAAO,CAAC,mBAAmB;IAmH3B,OAAO,CAAC,qBAAqB;IAyC7B,OAAO,CAAC,mBAAmB;IA8B3B,OAAO,CAAC,mBAAmB;IAuB3B,OAAO,CAAC,aAAa;IAWrB,OAAO,CAAC,iBAAiB;IAwCzB,OAAO,CAAC,gBAAgB;IA+DxB,OAAO,CAAC,qBAAqB;IAoC7B,OAAO,CAAC,qBAAqB;IAoB7B,OAAO,CAAC,sBAAsB;IAiB9B,OAAO,CAAC,yBAAyB;IAkB3B,sBAAsB,IAAI,OAAO,CAAC,iBAAiB,EAAE,CAAC;IAItD,eAAe,IAAI,OAAO,CAAC,UAAU,EAAE,CAAC;IAIxC,0BAA0B,IAAI,OAAO,CAAC,qBAAqB,EAAE,CAAC;IAI9D,wBAAwB,IAAI,OAAO,CAAC,kBAAkB,EAAE,CAAC;IAIzD,oBAAoB,CAAC,QAAQ,EAAE,iBAAiB,GAAG,OAAO,CAAC,IAAI,CAAC;IAMhE,cAAc,CAAC,OAAO,EAAE,MAAM,EAAE,MAAM,EAAE,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC;CAcjE"}
@@ -688,7 +688,307 @@ export class CancerTreatmentCapabilityModule {
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  cancerTypes: ['Any cancer with autoimmune comorbidity'],
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  approvedDrugs: ['Checkpoint inhibitors with caution', 'Targeted therapy preferred', 'Close monitoring'],
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  mechanismOfAction: 'Risk-benefit assessment for immunotherapy',
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- evidenceLevel: 'FDA-Approved', biomarker: 'Pre-existing autoimmune disease' }
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+ evidenceLevel: 'FDA-Approved', biomarker: 'Pre-existing autoimmune disease' },
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+ // === LIQUID BIOPSY AND ctDNA MONITORING ===
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+ { gene: 'ctDNA', protein: 'Circulating Tumor DNA', pathway: 'Monitoring',
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+ cancerTypes: ['All Solid Tumors'],
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+ approvedDrugs: ['Guardant360', 'FoundationOne Liquid CDx', 'Signatera'],
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+ mechanismOfAction: 'Non-invasive tumor genotyping and monitoring',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'ctDNA for treatment selection and MRD' },
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+ { gene: 'CTC', protein: 'Circulating Tumor Cells', pathway: 'Monitoring',
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+ cancerTypes: ['Breast', 'Prostate', 'Colorectal'],
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+ approvedDrugs: ['CellSearch'],
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+ mechanismOfAction: 'Enumerate CTCs for prognosis',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'CTC count ≥5 (breast/prostate)' },
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+ { gene: 'MRD-Heme', protein: 'Minimal Residual Disease (Hematologic)', pathway: 'Monitoring',
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+ cancerTypes: ['ALL', 'AML', 'CLL', 'Multiple Myeloma', 'Lymphoma'],
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+ approvedDrugs: ['Flow cytometry', 'NGS-MRD', 'clonoSEQ'],
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+ mechanismOfAction: 'Detect residual disease at 10^-6 sensitivity',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'MRD negativity predicts outcomes' },
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+ { gene: 'MRD-Solid', protein: 'Molecular Residual Disease (Solid)', pathway: 'Monitoring',
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+ cancerTypes: ['Colorectal', 'Breast', 'NSCLC', 'Bladder'],
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+ approvedDrugs: ['Signatera', 'Guardant Reveal'],
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+ mechanismOfAction: 'ctDNA-based MRD detection post-surgery',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'ctDNA MRD guides adjuvant therapy' },
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+ // === FERTILITY PRESERVATION ===
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+ { gene: 'Fertility-Female', protein: 'Female Fertility Preservation', pathway: 'Supportive',
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+ cancerTypes: ['Any in reproductive-age female'],
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+ approvedDrugs: ['Oocyte cryopreservation', 'Embryo cryopreservation', 'Ovarian tissue cryopreservation', 'GnRH agonist ovarian suppression'],
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+ mechanismOfAction: 'Preserve reproductive potential before gonadotoxic therapy',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'Pre-menopausal, desires future fertility' },
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+ { gene: 'Fertility-Male', protein: 'Male Fertility Preservation', pathway: 'Supportive',
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+ cancerTypes: ['Any in reproductive-age male'],
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+ approvedDrugs: ['Sperm cryopreservation', 'Testicular tissue cryopreservation (pediatric)', 'Testicular sperm extraction'],
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+ mechanismOfAction: 'Bank sperm before gonadotoxic therapy',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'Post-pubertal male, desires future fertility' },
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+ { gene: 'Gonadotoxicity', protein: 'Gonadotoxicity Assessment', pathway: 'Supportive',
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+ cancerTypes: ['Any receiving gonadotoxic therapy'],
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+ approvedDrugs: ['AMH testing', 'FSH/LH monitoring', 'Semen analysis'],
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+ mechanismOfAction: 'Assess fertility status before/after treatment',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'Alkylating agents, pelvic radiation' },
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+ // === INTEGRATIVE ONCOLOGY ===
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+ { gene: 'Integrative', protein: 'Integrative Oncology Approaches', pathway: 'Supportive',
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+ cancerTypes: ['Any'],
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+ approvedDrugs: ['Acupuncture (CINV, pain)', 'Meditation/mindfulness', 'Yoga', 'Massage therapy', 'Music therapy'],
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+ mechanismOfAction: 'Evidence-based complementary approaches',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'Patient preference, symptom management' },
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+ { gene: 'Cannabis', protein: 'Medical Cannabis', pathway: 'Supportive',
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+ cancerTypes: ['Any with symptoms'],
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+ approvedDrugs: ['Dronabinol', 'Nabilone', 'CBD/THC products (where legal)'],
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+ mechanismOfAction: 'Appetite stimulation, nausea, pain',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'Refractory symptoms' },
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+ { gene: 'Exercise-Onc', protein: 'Exercise Oncology', pathway: 'Supportive',
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+ cancerTypes: ['Any'],
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+ approvedDrugs: ['Aerobic exercise prescription', 'Resistance training', 'Prehabilitation', 'Cancer rehabilitation'],
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+ mechanismOfAction: 'Improve outcomes, reduce fatigue, enhance QoL',
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+ evidenceLevel: 'FDA-Approved', biomarker: 'All patients who can exercise' },
745
+ // === ADVANCED RADIATION TECHNIQUES ===
746
+ { gene: 'SBRT', protein: 'Stereotactic Body Radiotherapy', pathway: 'Radiation',
747
+ cancerTypes: ['NSCLC (early)', 'Liver mets', 'Spine mets', 'Oligometastatic'],
748
+ approvedDrugs: ['SBRT 3-5 fractions', 'High BED delivery'],
749
+ mechanismOfAction: 'Ablative doses with steep dose gradients',
750
+ evidenceLevel: 'FDA-Approved', biomarker: 'Limited metastatic burden, good PS' },
751
+ { gene: 'SRS', protein: 'Stereotactic Radiosurgery', pathway: 'Radiation',
752
+ cancerTypes: ['Brain metastases', 'Meningioma', 'Acoustic neuroma'],
753
+ approvedDrugs: ['Single fraction SRS', 'Fractionated SRS', 'Gamma Knife', 'CyberKnife'],
754
+ mechanismOfAction: 'Precise high-dose brain radiation',
755
+ evidenceLevel: 'FDA-Approved', biomarker: '1-10 brain metastases' },
756
+ { gene: 'Proton', protein: 'Proton Beam Therapy', pathway: 'Radiation',
757
+ cancerTypes: ['Pediatric tumors', 'Skull base', 'Spine', 'Prostate', 'Ocular melanoma'],
758
+ approvedDrugs: ['Proton therapy', 'Pencil beam scanning'],
759
+ mechanismOfAction: 'Bragg peak spares distal tissues',
760
+ evidenceLevel: 'FDA-Approved', biomarker: 'Pediatric, re-irradiation, critical structure proximity' },
761
+ { gene: 'Brachytherapy', protein: 'Brachytherapy', pathway: 'Radiation',
762
+ cancerTypes: ['Prostate', 'Cervical', 'Breast', 'Skin'],
763
+ approvedDrugs: ['LDR seeds', 'HDR brachytherapy', 'Intracavitary', 'Interstitial'],
764
+ mechanismOfAction: 'Internal radiation source placement',
765
+ evidenceLevel: 'FDA-Approved', biomarker: 'Localized disease amenable to implant' },
766
+ { gene: 'FLASH-RT', protein: 'FLASH Radiotherapy', pathway: 'Radiation',
767
+ cancerTypes: ['Investigational for all'],
768
+ approvedDrugs: ['Ultra-high dose rate RT (investigational)'],
769
+ mechanismOfAction: 'Spares normal tissue at ultra-high dose rates',
770
+ evidenceLevel: 'Phase I', biomarker: 'Emerging technology' },
771
+ // === INTERVENTIONAL ONCOLOGY ===
772
+ { gene: 'RFA', protein: 'Radiofrequency Ablation', pathway: 'Interventional',
773
+ cancerTypes: ['HCC', 'Colorectal liver mets', 'RCC', 'Lung nodules'],
774
+ approvedDrugs: ['RFA probe', 'CT/US guidance'],
775
+ mechanismOfAction: 'Thermal ablation of tumors',
776
+ evidenceLevel: 'FDA-Approved', biomarker: 'Tumor ≤3cm, not near critical structures' },
777
+ { gene: 'MWA', protein: 'Microwave Ablation', pathway: 'Interventional',
778
+ cancerTypes: ['HCC', 'Liver mets', 'Lung', 'Kidney'],
779
+ approvedDrugs: ['MWA antenna', 'CT guidance'],
780
+ mechanismOfAction: 'Microwave-induced coagulative necrosis',
781
+ evidenceLevel: 'FDA-Approved', biomarker: 'Larger tumors than RFA' },
782
+ { gene: 'Cryoablation', protein: 'Cryoablation', pathway: 'Interventional',
783
+ cancerTypes: ['RCC', 'Prostate', 'Breast', 'Bone mets'],
784
+ approvedDrugs: ['Argon-helium cryoprobe'],
785
+ mechanismOfAction: 'Freeze-thaw cycles cause cell death',
786
+ evidenceLevel: 'FDA-Approved', biomarker: 'Small renal masses, bone metastases' },
787
+ { gene: 'TACE', protein: 'Transarterial Chemoembolization', pathway: 'Interventional',
788
+ cancerTypes: ['HCC', 'Liver metastases', 'NET liver mets'],
789
+ approvedDrugs: ['Drug-eluting beads', 'Lipiodol + chemo'],
790
+ mechanismOfAction: 'Intra-arterial chemo + embolization',
791
+ evidenceLevel: 'FDA-Approved', biomarker: 'Unresectable HCC, Child-Pugh A/B' },
792
+ { gene: 'Y90', protein: 'Yttrium-90 Radioembolization', pathway: 'Interventional',
793
+ cancerTypes: ['HCC', 'Colorectal liver mets', 'NET liver mets'],
794
+ approvedDrugs: ['TheraSphere', 'SIR-Spheres'],
795
+ mechanismOfAction: 'Intra-arterial radioactive microspheres',
796
+ evidenceLevel: 'FDA-Approved', biomarker: 'Liver-predominant disease' },
797
+ { gene: 'IRE', protein: 'Irreversible Electroporation', pathway: 'Interventional',
798
+ cancerTypes: ['Pancreatic (locally advanced)', 'Liver', 'Prostate'],
799
+ approvedDrugs: ['NanoKnife'],
800
+ mechanismOfAction: 'Non-thermal ablation near vessels',
801
+ evidenceLevel: 'FDA-Approved', biomarker: 'Tumors near critical vessels' },
802
+ // === END-OF-LIFE AND HOSPICE ===
803
+ { gene: 'Palliative-Goals', protein: 'Goals of Care Discussions', pathway: 'Palliative',
804
+ cancerTypes: ['Any advanced cancer'],
805
+ approvedDrugs: ['Serious illness conversation', 'Advance directives', 'POLST/MOLST'],
806
+ mechanismOfAction: 'Align treatment with patient values',
807
+ evidenceLevel: 'FDA-Approved', biomarker: 'Advanced cancer, prognosis <1 year' },
808
+ { gene: 'Hospice', protein: 'Hospice Care', pathway: 'Palliative',
809
+ cancerTypes: ['Any with prognosis ≤6 months'],
810
+ approvedDrugs: ['Symptom management', 'Psychosocial support', 'Spiritual care', 'Bereavement'],
811
+ mechanismOfAction: 'Comfort-focused care at end of life',
812
+ evidenceLevel: 'FDA-Approved', biomarker: 'Prognosis ≤6 months, comfort focus' },
813
+ { gene: 'Palliative-Sedation', protein: 'Palliative Sedation', pathway: 'Palliative',
814
+ cancerTypes: ['Refractory suffering at end of life'],
815
+ approvedDrugs: ['Midazolam', 'Propofol', 'Phenobarbital'],
816
+ mechanismOfAction: 'Reduce consciousness for refractory symptoms',
817
+ evidenceLevel: 'FDA-Approved', biomarker: 'Refractory symptoms, imminent death' },
818
+ // === CAREGIVER SUPPORT ===
819
+ { gene: 'Caregiver', protein: 'Caregiver Support', pathway: 'Supportive',
820
+ cancerTypes: ['Any'],
821
+ approvedDrugs: ['Caregiver assessment', 'Respite care', 'Support groups', 'Counseling', 'Financial assistance'],
822
+ mechanismOfAction: 'Support informal caregivers',
823
+ evidenceLevel: 'FDA-Approved', biomarker: 'All cancer patients with caregivers' },
824
+ // === FINANCIAL TOXICITY ===
825
+ { gene: 'Financial', protein: 'Financial Toxicity Mitigation', pathway: 'Supportive',
826
+ cancerTypes: ['Any'],
827
+ approvedDrugs: ['Copay assistance', 'Patient assistance programs', 'Social work', 'Financial navigation', 'Generic alternatives'],
828
+ mechanismOfAction: 'Reduce financial burden of cancer care',
829
+ evidenceLevel: 'FDA-Approved', biomarker: 'Any patient with cost concerns' },
830
+ // === RARE HISTOLOGIC SUBTYPES ===
831
+ { gene: 'Carcinosarcoma', protein: 'Carcinosarcoma/MMMT', pathway: 'Multiple',
832
+ cancerTypes: ['Uterine carcinosarcoma', 'Ovarian carcinosarcoma'],
833
+ approvedDrugs: ['Carboplatin/Paclitaxel', 'Ifosfamide', 'Pembrolizumab'],
834
+ mechanismOfAction: 'Treat as high-grade carcinoma',
835
+ evidenceLevel: 'FDA-Approved', biomarker: 'Biphasic tumor' },
836
+ { gene: 'Adenoid-Cystic', protein: 'Adenoid Cystic Carcinoma', pathway: 'Multiple',
837
+ cancerTypes: ['Salivary gland', 'Breast', 'Skin', 'Tracheobronchial'],
838
+ approvedDrugs: ['Surgery + radiation', 'Lenvatinib (investigational)', 'Axitinib'],
839
+ mechanismOfAction: 'Slow-growing but persistent disease',
840
+ evidenceLevel: 'Phase II', biomarker: 'MYB-NFIB fusion common' },
841
+ { gene: 'Clear-Cell-Sarc', protein: 'Clear Cell Sarcoma', pathway: 'Fusion',
842
+ cancerTypes: ['Soft tissue (tendons)'],
843
+ approvedDrugs: ['Surgery', 'Chemotherapy (limited efficacy)', 'Clinical trials'],
844
+ mechanismOfAction: 'EWSR1-ATF1 fusion driven',
845
+ evidenceLevel: 'Phase II', biomarker: 'EWSR1-ATF1/CREB1 fusion' },
846
+ { gene: 'Alveolar-Soft', protein: 'Alveolar Soft Part Sarcoma', pathway: 'Fusion',
847
+ cancerTypes: ['Soft tissue (extremities)'],
848
+ approvedDrugs: ['Atezolizumab', 'Sunitinib', 'Axitinib'],
849
+ mechanismOfAction: 'ASPL-TFE3 fusion, responds to anti-angiogenics/IO',
850
+ evidenceLevel: 'FDA-Approved', biomarker: 'ASPL-TFE3 fusion' },
851
+ { gene: 'PEComa', protein: 'Perivascular Epithelioid Cell Tumor', pathway: 'mTOR',
852
+ cancerTypes: ['Soft tissue', 'GI', 'Gynecologic'],
853
+ approvedDrugs: ['Sirolimus', 'Nab-sirolimus'],
854
+ mechanismOfAction: 'TSC/mTOR pathway driven',
855
+ evidenceLevel: 'FDA-Approved', biomarker: 'TSC1/2 alteration' },
856
+ { gene: 'GNET', protein: 'Gastrointestinal Neuroectodermal Tumor', pathway: 'Fusion',
857
+ cancerTypes: ['GI tract (rare)'],
858
+ approvedDrugs: ['Surgery', 'Sarcoma-type chemotherapy'],
859
+ mechanismOfAction: 'EWSR1-CREB1 fusion',
860
+ evidenceLevel: 'Phase II', biomarker: 'EWSR1 rearrangement' },
861
+ { gene: 'Phyllodes', protein: 'Phyllodes Tumor', pathway: 'Breast',
862
+ cancerTypes: ['Breast (fibroepithelial)'],
863
+ approvedDrugs: ['Wide excision', 'Mastectomy if needed', 'Radiation (borderline/malignant)'],
864
+ mechanismOfAction: 'Surgical resection primary',
865
+ evidenceLevel: 'FDA-Approved', biomarker: 'MED12 mutation common' },
866
+ { gene: 'Secretory-Breast', protein: 'Secretory Breast Carcinoma', pathway: 'Fusion',
867
+ cancerTypes: ['Breast (rare, often pediatric)'],
868
+ approvedDrugs: ['Surgery', 'Larotrectinib/Entrectinib if TRK+'],
869
+ mechanismOfAction: 'ETV6-NTRK3 fusion in most cases',
870
+ evidenceLevel: 'FDA-Approved', biomarker: 'ETV6-NTRK3 fusion' },
871
+ { gene: 'Inflammatory-Breast', protein: 'Inflammatory Breast Cancer', pathway: 'Aggressive',
872
+ cancerTypes: ['Breast (IBC)'],
873
+ approvedDrugs: ['Neoadjuvant chemo mandatory', 'Mastectomy', 'Radiation', 'Targeted/IO per subtype'],
874
+ mechanismOfAction: 'Trimodality therapy required',
875
+ evidenceLevel: 'FDA-Approved', biomarker: 'Clinical diagnosis (peau d\'orange)' },
876
+ { gene: 'Small-Cell-Ovarian', protein: 'Small Cell Ovarian (Hypercalcemic)', pathway: 'SMARCA4',
877
+ cancerTypes: ['Ovary (young women)'],
878
+ approvedDrugs: ['Intensive chemo', 'EZH2 inhibitors (investigational)', 'Clinical trials'],
879
+ mechanismOfAction: 'SMARCA4/BRG1 loss',
880
+ evidenceLevel: 'Phase II', biomarker: 'SMARCA4 mutation' },
881
+ { gene: 'Signet-Ring', protein: 'Signet Ring Cell Carcinoma', pathway: 'Aggressive',
882
+ cancerTypes: ['Gastric', 'Colorectal', 'Appendiceal', 'Breast'],
883
+ approvedDrugs: ['Chemotherapy (often resistant)', 'HIPEC (appendiceal)'],
884
+ mechanismOfAction: 'Aggressive, chemoresistant histology',
885
+ evidenceLevel: 'FDA-Approved', biomarker: 'Signet ring morphology' },
886
+ { gene: 'Plasmablastic', protein: 'Plasmablastic Lymphoma', pathway: 'Aggressive',
887
+ cancerTypes: ['NHL (HIV-associated, oral)'],
888
+ approvedDrugs: ['EPOCH', 'CODOX-M/IVAC', 'Bortezomib-based', 'CAR-T (investigational)'],
889
+ mechanismOfAction: 'Aggressive, often EBV+',
890
+ evidenceLevel: 'Phase II', biomarker: 'HIV+, EBV+' },
891
+ { gene: 'Blastic-NK', protein: 'Blastic Plasmacytoid Dendritic Cell Neoplasm', pathway: 'Aggressive',
892
+ cancerTypes: ['Skin/hematologic'],
893
+ approvedDrugs: ['Tagraxofusp', 'ALL-type induction', 'Transplant'],
894
+ mechanismOfAction: 'CD123-targeting therapy',
895
+ evidenceLevel: 'FDA-Approved', biomarker: 'CD123+ BPDCN' },
896
+ // === CLINICAL TRIAL MATCHING OPTIMIZATION ===
897
+ { gene: 'TrialMatch-Biomarker', protein: 'Biomarker-Driven Trial Matching', pathway: 'Clinical Trials',
898
+ cancerTypes: ['All Solid Tumors', 'All Hematologic'],
899
+ approvedDrugs: ['NCI-MATCH', 'NCI-MPACT', 'TAPUR', 'My Pathway', 'Molecular Analysis for Therapy Choice'],
900
+ mechanismOfAction: 'Match patients to trials based on actionable alterations',
901
+ evidenceLevel: 'FDA-Approved', biomarker: 'Any actionable genomic alteration' },
902
+ { gene: 'TrialMatch-Immunotherapy', protein: 'Immunotherapy Trial Matching', pathway: 'Clinical Trials',
903
+ cancerTypes: ['All Solid Tumors'],
904
+ approvedDrugs: ['I-SPY 2', 'KEYNOTE trials', 'CheckMate trials', 'LEAP trials', 'MORPHEUS trials'],
905
+ mechanismOfAction: 'Novel immunotherapy combinations and sequences',
906
+ evidenceLevel: 'Phase III', biomarker: 'PD-L1, TMB-H, MSI-H, TILs' },
907
+ { gene: 'TrialMatch-ADC', protein: 'ADC Clinical Trial Matching', pathway: 'Clinical Trials',
908
+ cancerTypes: ['Breast', 'NSCLC', 'Bladder', 'Ovarian', 'Gastric'],
909
+ approvedDrugs: ['DESTINY trials', 'TROPION trials', 'PADCEV trials', 'Dato-DXd trials'],
910
+ mechanismOfAction: 'Next-generation antibody-drug conjugates',
911
+ evidenceLevel: 'Phase II', biomarker: 'HER2-low, TROP2, Nectin-4, FRα' },
912
+ { gene: 'TrialMatch-Bispecific', protein: 'Bispecific Antibody Trial Matching', pathway: 'Clinical Trials',
913
+ cancerTypes: ['Multiple Myeloma', 'Lymphoma', 'Solid Tumors'],
914
+ approvedDrugs: ['GPRC5D trials', 'FcRH5 trials', 'PSMA bispecific trials', 'DLL3 trials'],
915
+ mechanismOfAction: 'T-cell engaging bispecific antibodies',
916
+ evidenceLevel: 'Phase II', biomarker: 'Target antigen expression' },
917
+ { gene: 'TrialMatch-CART', protein: 'CAR-T/Cell Therapy Trial Matching', pathway: 'Clinical Trials',
918
+ cancerTypes: ['B-ALL', 'DLBCL', 'Multiple Myeloma', 'Solid Tumors'],
919
+ approvedDrugs: ['Allogeneic CAR-T trials', 'CAR-NK trials', 'TIL expansion trials', 'TCR-T trials'],
920
+ mechanismOfAction: 'Next-generation cellular therapies',
921
+ evidenceLevel: 'Phase I', biomarker: 'Relapsed/refractory, target antigen+' },
922
+ { gene: 'TrialMatch-Targeted', protein: 'Novel Targeted Therapy Trials', pathway: 'Clinical Trials',
923
+ cancerTypes: ['All Solid Tumors'],
924
+ approvedDrugs: ['KRAS G12D trials', 'SHP2 inhibitor trials', 'SOS1 inhibitor trials', 'CDK2 trials', 'WRN trials'],
925
+ mechanismOfAction: 'Emerging targeted therapy combinations',
926
+ evidenceLevel: 'Phase I', biomarker: 'KRAS G12D, STK11, KEAP1, MSS' },
927
+ { gene: 'TrialMatch-Degrader', protein: 'Protein Degrader Trial Matching', pathway: 'Clinical Trials',
928
+ cancerTypes: ['Breast', 'Prostate', 'Hematologic'],
929
+ approvedDrugs: ['PROTAC trials', 'Molecular glue trials', 'ER degrader trials', 'AR degrader trials'],
930
+ mechanismOfAction: 'Targeted protein degradation strategies',
931
+ evidenceLevel: 'Phase I', biomarker: 'ER+, AR+, undruggable targets' },
932
+ { gene: 'TrialMatch-RadioLigand', protein: 'Radioligand Therapy Trials', pathway: 'Clinical Trials',
933
+ cancerTypes: ['Prostate', 'NET', 'Gastric', 'Multiple Myeloma'],
934
+ approvedDrugs: ['FAP-targeted trials', 'PSMA tandem trials', 'Alpha-emitter trials', 'Actinium-225 trials'],
935
+ mechanismOfAction: 'Next-generation radiopharmaceuticals',
936
+ evidenceLevel: 'Phase II', biomarker: 'PSMA+, SSTR2+, FAP+' },
937
+ { gene: 'TrialMatch-Vaccine', protein: 'Cancer Vaccine Trial Matching', pathway: 'Clinical Trials',
938
+ cancerTypes: ['Melanoma', 'NSCLC', 'Pancreatic', 'Colorectal'],
939
+ approvedDrugs: ['mRNA neoantigen trials', 'Personalized vaccine trials', 'Viral vector trials', 'DC vaccine trials'],
940
+ mechanismOfAction: 'Therapeutic cancer vaccines',
941
+ evidenceLevel: 'Phase II', biomarker: 'Neoantigen burden, immunogenic tumors' },
942
+ { gene: 'TrialMatch-Epigenetic', protein: 'Epigenetic Therapy Trials', pathway: 'Clinical Trials',
943
+ cancerTypes: ['AML', 'MDS', 'Lymphoma', 'Solid Tumors'],
944
+ approvedDrugs: ['Menin inhibitor trials', 'EZH2 inhibitor trials', 'LSD1 inhibitor trials', 'BET inhibitor trials'],
945
+ mechanismOfAction: 'Epigenetic modulation strategies',
946
+ evidenceLevel: 'Phase II', biomarker: 'MLL-rearranged, NPM1, IDH' },
947
+ { gene: 'TrialMatch-Rare', protein: 'Rare Cancer Trial Matching', pathway: 'Clinical Trials',
948
+ cancerTypes: ['Rare Cancers', 'Ultra-Rare Histologies'],
949
+ approvedDrugs: ['CREATE trials', 'DART trials', 'NCI-COG Pediatric MATCH', 'RARE-1 trials'],
950
+ mechanismOfAction: 'Dedicated rare cancer trial networks',
951
+ evidenceLevel: 'Phase II', biomarker: 'Rare histology, limited treatment options' },
952
+ { gene: 'TrialMatch-Combo', protein: 'Rational Combination Trials', pathway: 'Clinical Trials',
953
+ cancerTypes: ['All Solid Tumors'],
954
+ approvedDrugs: ['IO + targeted trials', 'Dual checkpoint trials', 'Chemo + IO + targeted trials'],
955
+ mechanismOfAction: 'Synergistic combination development',
956
+ evidenceLevel: 'Phase II', biomarker: 'Based on mechanism and biomarker' },
957
+ { gene: 'TrialMatch-Neoadjuvant', protein: 'Neoadjuvant/Adjuvant Trials', pathway: 'Clinical Trials',
958
+ cancerTypes: ['Breast', 'NSCLC', 'Melanoma', 'RCC', 'Bladder'],
959
+ approvedDrugs: ['Perioperative IO trials', 'ctDNA-guided trials', 'De-escalation trials'],
960
+ mechanismOfAction: 'Optimize perioperative therapy',
961
+ evidenceLevel: 'Phase III', biomarker: 'Resectable, high-risk features' },
962
+ { gene: 'TrialMatch-ctDNA', protein: 'ctDNA-Guided Therapy Trials', pathway: 'Clinical Trials',
963
+ cancerTypes: ['Colorectal', 'Breast', 'NSCLC', 'Bladder', 'All Solid'],
964
+ approvedDrugs: ['CIRCULATE trials', 'DYNAMIC trials', 'ctDNA escalation trials', 'MRD-directed trials'],
965
+ mechanismOfAction: 'ctDNA-based treatment decisions',
966
+ evidenceLevel: 'Phase III', biomarker: 'ctDNA MRD status post-surgery' },
967
+ { gene: 'TrialMatch-Pediatric', protein: 'Pediatric Cancer Trial Matching', pathway: 'Clinical Trials',
968
+ cancerTypes: ['Pediatric Solid Tumors', 'Pediatric Brain Tumors', 'Pediatric Leukemia'],
969
+ approvedDrugs: ['COG trials', 'PBTC trials', 'Pediatric MATCH', 'PPTP agent trials'],
970
+ mechanismOfAction: 'Age-appropriate pediatric trials',
971
+ evidenceLevel: 'Phase I', biomarker: 'Age ≤21, pediatric-specific alterations' },
972
+ { gene: 'TrialMatch-AYA', protein: 'AYA-Specific Trial Matching', pathway: 'Clinical Trials',
973
+ cancerTypes: ['AYA Cancers (15-39 years)'],
974
+ approvedDrugs: ['AYA-focused protocols', 'Adolescent-friendly trial sites', 'Fertility-preserving trials'],
975
+ mechanismOfAction: 'Age-appropriate trial design for young adults',
976
+ evidenceLevel: 'Phase II', biomarker: 'Age 15-39, unique AYA biology' },
977
+ { gene: 'TrialMatch-Elderly', protein: 'Elderly/Frail Patient Trials', pathway: 'Clinical Trials',
978
+ cancerTypes: ['All Cancers in Elderly'],
979
+ approvedDrugs: ['Geriatric oncology trials', 'De-intensification trials', 'Tolerability-focused trials'],
980
+ mechanismOfAction: 'Appropriate trials for older adults',
981
+ evidenceLevel: 'Phase II', biomarker: 'Age ≥70, comorbidities, frailty' },
982
+ { gene: 'TrialMatch-RealWorld', protein: 'Real-World Evidence Integration', pathway: 'Clinical Trials',
983
+ cancerTypes: ['All Cancers'],
984
+ approvedDrugs: ['Pragmatic trial designs', 'Registry-embedded trials', 'EHR-integrated trials'],
985
+ mechanismOfAction: 'Real-world data to expand trial access',
986
+ evidenceLevel: 'FDA-Approved', biomarker: 'Broader eligibility criteria' },
987
+ { gene: 'TrialMatch-Access', protein: 'Clinical Trial Access Solutions', pathway: 'Clinical Trials',
988
+ cancerTypes: ['All Cancers'],
989
+ approvedDrugs: ['Decentralized trials', 'Travel support programs', 'Community site trials', 'Virtual trial visits'],
990
+ mechanismOfAction: 'Remove barriers to trial participation',
991
+ evidenceLevel: 'FDA-Approved', biomarker: 'Geographic/financial barriers' }
692
992
  ];
693
993
  // ═══════════════════════════════════════════════════════════════════════════════
694
994
  // IMMUNOTHERAPY PROTOCOLS