These are the answers to your questions
GeneMetrics + Amen Clinics
A brain-first pharmacogenomics and functional-genetics platform, delivered as a white-labeled Amen product. This response answers every item in Dr. Emina's technical request, tier mapping, validation, evidence, sample reports, pricing, API and compliance, with citations to the live LifeMetrics platform.
Amen Tier A, B, C against the GeneMetrics panel
Every gene from the Amen technical request is mapped below to the exact assay method GeneMetrics runs today, the marker(s) called, and the report surface each call is exposed on. Rows highlighted amber are proposed for the Amen pilot manifest, hover to see the exact places we searched before flagging them as gaps.
Click a tier card to open its full mapping.
Tier A, Clinical PGx (28 genes)
Tier B, Functional Nutrigenomics (91 genes)
Amen Clinics' Tier B request list, grouped by biological system. Struck-through chips mark genes not yet in the LifeMetrics manifest.
Methylation & one-carbon metabolism
12Folate cycle, homocysteine handling, choline and B12 transport. Drives methylation-dependent brain-health protocols.
Lipid & cardiovascular
12 + 1Fatty acid desaturation, cholesterol trafficking, apolipoprotein biology.
Vitamins & micronutrients
5Vitamin A/carotenoids, vitamin D activation, vitamin C transport.
Caffeine & circadian rhythm
7Caffeine metabolism, adenosine signalling and circadian clock genes.
Histamine & alcohol metabolism
5Histamine breakdown and ethanol clearance pathways.
Glucose regulation & weight
13Insulin signalling, glucose transport, adipocyte biology and PPAR family.
Detoxification & antioxidants
15Phase I/II detox, glutathione conjugation, oxidative stress response.
Hormonal, estrogen & androgen
6 + 1Steroidogenesis, sex hormone binding, receptor signalling.
Fitness & connective tissue
9 + 1Muscle performance, collagen structure and matrix remodelling.
Food sensitivities & taste
4Lactose digestion, celiac risk haplotypes and bitter-taste perception.
Tier C, Research & Amen.IQ (36 genes)
Amen Clinics' Tier C request list, grouped by biological system. Struck-through chips mark genes not yet in the LifeMetrics manifest.
Neurotransmitter & receptor signalling
9 + 1Monoamine metabolism, dopamine and serotonin receptors, glutamate/GABA/nicotinic receptors and reuptake transporters.
Endocannabinoid & stress response
4Endocannabinoid tone, HPA-axis regulation and glucocorticoid receptor signalling.
Mitochondrial function
5 + 1Mitochondrial biogenesis, uncoupling proteins and mtDNA replication.
Inflammation & immune
6 + 2Acute-phase response, cytokine signalling, hypoxia and NF-kB pathway.
Longevity & cellular aging
6 + 2Sirtuins, telomere maintenance, nutrient sensing and IGF/mTOR signalling.
Analytical validation, accreditations, reproducibility
Amen asked for CLIA/CAP letters and CYP2D6 CNV handling. Here's the current state and the pilot-phase attestation package.
Accreditations
- Primary laboratory: Metrics Labs
6507 Jester Blvd 510Q, Austin, TX 78750, United States - CLIA / CAP certified laboratory network
- GeneMetrics informatics platform: HIPAA-covered, SOC 2 Type II in progress.
CYP2D6 CNV & complex-allele handling
Star-allele and targeted caller engine
GeneMetrics uses the DRAGEN v4.0 PGx pipeline as the star-allele and targeted caller for the Amen PGx assay. The relevant capabilities are described in the Illumina DRAGEN v4.0 product update.
Sourced, graded, and customized for Amen
Every interpretation is anchored to the latest guideline release, then classified by evidence type. Clinical PGx reports follow PharmGKB standards; non-PGx lifestyle recommendations come from the GeneMetrics science and research team's review of peer-reviewed literature. Report language can be customized to match Amen's clinical voice and preferences.
Guideline sources and grading
Interpretations follow the latest PharmGKB clinical annotation guidelines and recommendations, which integrate CPIC, DPWG, FDA, EMA, Swissmedic and other major regulatory sources. Each guideline is pinned by version, so historical reports remain reproducible and updates flow through a versioned rules file before they reach any report surface.
Clinical PGx versus lifestyle reporting
Only the clinical PGx report is built to the PharmGKB standard and mirrors guideline language from CPIC, DPWG, FDA, EMA and Swissmedic. Beyond clinical PGx, what we call functional nutrigenomics and wellness reporting is generated by the GeneMetrics science and research team's research and analysis of peer-reviewed studies, not by the PharmGKB guideline set.
Customizable report language
Report language can be fully customized for Amen Clinics based on what Amen Clinics would like to recommend. Any claim, category, or recommendation can be suppressed, rewritten, or replaced with Amen Clinics' preferred patient-facing copy. This applies across clinical PGx, functional nutrigenomics, and wellness sections, so the final output reflects Amen Clinics' clinical voice and risk preferences.
Three deliverables, all Amen-branded
Every report is generated from the same underlying marker_calls dataset, the difference is which surface it lands on and how it's narrated.
Demo environment review
Access the live demo environment to review sample reports, ordering workflows, and the Amen Clinics GeneMetrix dashboard.
Three tiered products, custom manufacturing
We are a custom manufacturer, so these are not list prices. Each figure is a starting range at the volume tier shown and will be finalized during onboarding once the exact panel build-out is confirmed.
| Panel | 10 / mo | 100 / mo | 300 / mo | 500 / mo | TAT | Includes |
|---|---|---|---|---|---|---|
| PGx Core (Tier A) — standalone product | $230 | $183 | $161 | $149 | 2 to 3 weeks | 28 clinical PGx genes with clinician report |
| Nutrigenomics (Tier B) — standalone product | $269 | $208 | $180 | $167 | 2 to 3 weeks | 47 polygenic risk engines covering the functional genes requested, with patient report |
| Brain Health (TRC) — standalone product | $220 | $175 | $150 | $143 | 2 to 3 weeks | 35 polygenic risk engines covering the genes listed in the Tier C list Amen sent |
| PGx Core + Nutrigenomics | $404 | $311 | $271 | $251 | 2 to 3 weeks | Clinical PGx plus the full functional nutrigenomics panel on one accession |
| PGx Core + Nutrigenomics + Brain Health | $469 | $343 | $304 | $289 | 2 to 3 weeks | Full stack, clinical PGx, functional nutrigenomics, and the 35 Tier C polygenic risk engines |
Pricing estimates are based on a sample generated report. True cost per unit is subject to the official build out during onboarding. All prices below are ranges, not quotes. Final per-unit cost depends on the exact gene list, assay configuration, reporting depth, and volume commitment agreed during onboarding. The numbers shown are representative volume-tier starting points for the commercial conversation. Standard turnaround for all three tiers is 2 to 3 weeks from sample accessioning at the lab. Kit-order and in-transit time are tracked in the Amen Clinics dashboard but do not count against TAT SLA.
How Amen systems talk to GeneMetrics
One authenticated POST endpoint dispatched by an action slug, the same Platform API that powers LifeMetrics today. 155 actions, 41 webhook events, 20 categories, all discoverable at runtime through the api.* family.
Envelope
Every call is a POST to a single URL. The action is selected by theaction field in the JSON body (or ?action= query param). Uniform for SDKs, the lifemetrics CLI, and agents.
POST https://api.genemetrics.io/functions/v1/platform-api
Authorization: Bearer lmk_live_...
Content-Type: application/json
X-Idempotency-Key: 9d3f... (mutating actions, 24h dedup)
{ "action": "get_generated_insight_report",
"report_id": "ir_1029384",
"format": "json" }lmk_live_/lmk_test_tenant-wide Platform keylm_sbx_sandbox key, auto-fires lifecycle webhookslm_eu_end-user key (Client API subset)
X-LifeMetrics-API-Request-IDmirrored in bodyX-LifeMetrics-API-Version,-RateLimit-Remaining- ETag +
If-None-Matchfor cached reads
Action surface, Amen-relevant subset
supabase/functions/platform-api/index.ts in the LifeMetrics NextGen codebase (case handlers, L3155 to L3600).Pipeline, real code paths
- 1Accessionsubmit_lab_order to Metrics Labs (Austin) LIMS. lab_order.status_changed webhook fires with previous_status + status.
- 2Extract / QCWet lab; failures surface as lab_order.order_error.
- 3GenotypeSNP array or WGS. Raw file lands in S3, matched to kit via aws-lab-results-router.
- 4Ingestlab_results.received fires with barcode, product_kind, source S3 path. For PGx, pgx-import parses vendor JSON (Dragena, PharmCAT, Stargazer) and writes encrypted rows to sources + marker_calls in Genome Storage.
- 5InterpretInsight engines score gauges against pinned rules_version; generate_new_insight_report builds the bundle.
- 6Releaseinsight_report.generation_succeeded + report.pdf.generation_succeeded fire. Amen polls get_generated_insight_report or receives push.
Webhook events, real slugs
HMAC-SHA256 signed. Header X-LifeMetrics-Signature: sha256=<hex>, plus X-Webhook-Event-Id for consumer dedup and X-Webhook-Attempt. Retries with exponential backoff, dead-letter queue browsable via the API.
- lab_order.requisition_readyrequisition PDF available
- lab_order.status_changedstate transition, carries previous_status
- lab_order.results_readyfinal results PDF available
- lab_results.receivedinbound file matched to a kit
- lab_product_data.availableper-product data ready before kit rollup
- genetics_result.uploadedraw genetics file received, file_id issued
- genome_result.processing_succeededcalled-variant payload ready
- insight_report.generation_succeededreport or bundle built (item_type, generation_type)
- insight_report.generation_failedcarries error_message
- report.pdf.generation_succeededPDF export ready
Sample response, get_generated_insight_report format=json
POST /functions/v1/platform-api
{ "action": "get_generated_insight_report", "report_id": "ir_1029384", "format": "json" }
200 OK ETag: "5g3k-2f1" X-LifeMetrics-API-Request-ID: 9d3f...
{
"report_id": "ir_1029384",
"user_id": 88291,
"tenant_id": 42,
"template_slug": "combined_brain_health_v1",
"engine_types_included": ["pgx", "nutrigenomics", "methylation"],
"generated_at": "2025-02-14T18:04:22Z",
"rules_version": "2024.11.02",
"gauges": [
{ "engine_type": "pgx", "gauge_slug": "ssri_response",
"value": 0.18, "band": "red", "band_color": "#c14040",
"calls": [
{ "gene": "CYP2D6", "diplotype": "*4/*4",
"activity_score": 0.0, "phenotype": "Poor Metabolizer",
"confidence": "high",
"evidence": [
{ "source": "CPIC", "level": "A", "guideline_id": "TCAs-2016" },
{ "source": "FDA", "table_row": "amitriptyline" }
],
"surface": ["clinician", "patient", "api"] }
] }
],
"pdf_url": "https://cdn.genemetrics.io/reports/ir_1029384.pdf?sig=..."
}PGx call rows come from the marker_calls table populated by pgx-import. Gene, diplotype, phenotype, drug, and recommendation cells are AES-256 encrypted at rest; the response decrypts inside the edge function. Raw VCF or vendor JSON is retrievable via download_genetics_raw_file when the tenant contract permits.
HIPAA, BAA, data ownership, patient rights
Every commitment below is either already implemented in the LifeMetrics platform, independently attested through the GeneMetrics Trust Center, codified in the standard GeneMetrics Terms and Conditions, or will be locked into the Amen MSA.
HIPAA & BAA
Third-party validated HIPAA program covering privacy, security, and integrity safeguards for PHI (trust.genemetrics.com). Standard HIPAA BAA is offered as part of the Amen MSA, with GeneMetrics acting as Business Associate. Access is RBAC + row-level security enforced in the LifeMetrics Supabase policies, with least-privilege administrative access logged through the cloud provider.
Independent attestations
SOC 2 Type I and SOC 2 Type II attested over a defined review period, plus GDPR compliance audited by an independent assessor. Audit reports, security policies, and compliance documentation are released through the GeneMetrics Drata Trust Center under NDA.
Encryption & infrastructure
AES-256 for sensitive health data at rest (including marker_calls encrypted columns in LifeMetrics) and TLS 1.3 in transit. HIPAA-ready cloud data centers with automated daily backups, redundant copies in the primary region, continuous cloud monitoring, DDoS mitigation, intrusion detection, and isolated environments.
Data ownership & export
Under Section 8.2 of the GeneMetrics Terms, Client owns all right, title, and interest in Client Data. Amen can request access to, export, or delete the clinical record at any time, subject to legal and contractual requirements. Deletion cascades through marker_calls, sources, and reports via foreign keys in the LifeMetrics schema.
Data & specimen retention
Raw call files are retained for the minimum window required by CLIA record-keeping; the exact retention schedule for specimens and digital artifacts will be finalized in Exhibit A during onboarding.
Secondary use & aggregated data
Section 2.6 of the GeneMetrics Terms defines Aggregated Data as de-identified, anonymized information derived from platform use. GeneMetrics never sells personal health information (trust.genemetrics.com). Any secondary use is limited to Aggregated Data compiled in compliance with applicable law; identifiable Client Data is not repurposed. Amen can further restrict aggregated-data use in the MSA if desired.
Subprocessors
Core subprocessors: Supabase (Postgres, auth, row-level security, storage), Illumina DRAGEN v4.0 pipelines running in the sequencing environment, and standard HIPAA-ready cloud infrastructure providers. The current subprocessor list, along with any changes, is published through the GeneMetrics Drata Trust Center and included as an exhibit to the BAA.
Amen-specific report logic
Amen-authored report copy, protocols, interpretation logic, and clinical voice qualify as Amen Confidential Information under Section 7 of the GeneMetrics Terms and cannot be reused with any other client. The publicity restriction in the same section also prevents GeneMetrics from disclosing the Amen relationship, marketing off it, or repurposing Amen-branded assets without prior written consent. Confidentiality obligations run for five years, with trade-secret material protected for as long as it remains a trade secret.
Patient rights
Right-to-access, right-to-amend, and right-to-delete flows are plumbed through the LifeMetrics profile-settings surfaces. These are HIPAA-aligned patient rights, supported subject to legal and contractual constraints, consistent with the privacy practices summarized in the GeneMetrics Trust Center.
If Amen Clinics is ready to move toward a pilot
The onboarding sequence would run about six to eight weeks.
Sign agreements
Execute the MSA, BAA, and any lab service agreement needed so the pilot has a clear data, billing, and compliance framework.
Build all three reports during onboarding
Configure the PGx Core, Nutrigenomics, and Combined Brain Health report templates, map Amen report language preferences, and validate the combined output against the gene list.
Launch
Release the white-labeled reports into the Amen workflow, train the clinical team, and begin accessioning live samples.