CPT 0560U: Haystack MRD™ Baseline Genomic Variant Panel

CPT code 0560U designates the Haystack MRD™ Baseline test from Quest Diagnostics®, a Proprietary Laboratory Analyses (PLA) code for a personalized genomic sequencing panel derived from tumor tissue and whole blood. The assay establishes a patient-specific variant panel to detect minimal residual disease (MRD) and to serve as a baseline for serial MRD monitoring. Nationally, PLA codes like 0560U matter because they identify single-source, manufacturer- or lab-specific tests that can have distinct coverage and pricing considerations compared with nonproprietary assays.

Key payers in this analysis include Aetna, Blue Cross Blue Shield, Cigna Health, UnitedHealthcare and Medicare. The report outlines which payers are evaluated and summarizes common coverage considerations for proprietary MRD assays.

Readers will learn the clinical purpose of the test, typical sites of service, and the context in which 0560U is reported. The publication provides benchmarks and policy-relevant information about proprietary genomic MRD testing, including payer coverage patterns, documentation expectations, and coding practice considerations. Data not available in the input will be identified as such in the detailed sections.

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Billing Code Overview

CPT code 0560U is a Proprietary Laboratory Analyses (PLA) code that applies exclusively to the Haystack MRD™ Baseline test from Quest Diagnostics®. The test uses genomic sequence analysis of tumor tissue and whole blood to create a personalized variant panel that serves as a baseline for future minimal residual disease (MRD) assessments. The panel is designed to detect small amounts of cancer cells remaining after treatment by identifying patient-specific variants.

Service Type: Proprietary laboratory genomic sequencing for MRD baseline panel

Typical Site of Service: Clinical laboratory or reference diagnostic laboratory (Quest Diagnostics® testing facilities)

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CPT 0560U: Haystack MRD™ Baseline Genomic Variant Panel

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Billing Code Overview

Service Type: Proprietary laboratory genomic sequencing for MRD baseline panel

Typical Site of Service: Clinical laboratory or reference diagnostic laboratory (Quest Diagnostics® testing facilities)

Clinical & Coding Specifications

Clinical Context

A typical patient is an adult or pediatric oncology patient who has completed definitive therapy (surgery, chemotherapy, and/or radiotherapy) for a solid tumor or hematologic malignancy and requires a personalized baseline for future minimal residual disease (MRD) monitoring. The treating oncologist at an outpatient cancer center orders Haystack MRD™ Baseline to create a tumor-informed variant panel by combining genomic sequencing of available tumor tissue and matched whole blood. The specimen workflow includes: tumor tissue retrieval (archival fixed tissue or fresh biopsy) and a peripheral whole-blood draw; specimens are sent to Quest Diagnostics®; the laboratory performs genomic sequence analysis to identify tumor-specific variants and constructs a personalized assay for serial circulating tumor DNA (ctDNA) MRD surveillance. Typical sites of service include outpatient oncology clinics, hospital outpatient departments, and specialized molecular diagnostic laboratories. Results are used by the oncology care team to establish a individualized MRD baseline for subsequent surveillance testing and to inform clinical discussions about recurrence risk and surveillance intervals.

Related Diagnoses

ICD-10 Code	Description	Clinical Relevance
`C80.1`	Malignant (primary) neoplasm, unspecified	Used when a specific primary site is not documented but MRD baseline testing is indicated for cancer surveillance.
`C78.7`	Secondary malignant neoplasm of liver and intrahepatic bile duct	Common metastatic site where tumor tissue may be available for sequencing to generate an MRD panel.
`C50.9`	Malignant neoplasm of breast, unspecified	Breast cancer patients often undergo tumor-informed MRD testing for post-treatment surveillance planning.
`C34.90`	Malignant neoplasm of unspecified part of bronchus or lung	Lung cancer patients may have tumor tissue profiled for personalized MRD baseline development.
`C83.90`	Non-Hodgkin lymphoma, unspecified, not having achieved remission	Hematologic malignancies are frequent indications for MRD assays to monitor residual disease after therapy.

Related CPT Codes

CPT Code	Description	Relationship to This Procedure
`0560U`	Haystack MRD™ Baseline — genomic sequence analysis of tumor tissue and whole blood to create a personalized variant panel for MRD detection	Primary PLA code to report this specific baseline MRD assay performed by Quest Diagnostics®.
`88184`	Morphometric analysis, quantitative; manual or computer-assisted (e.g., immunohistochemistry image analysis)	May be performed on tumor tissue to quantify tumor content prior to sequencing and to support adequacy of the tissue specimen used for panel design.
`88360`	Surgical pathology, gross and microscopic examination with consultation for complex cases (example; consultative interpretation)	Pathology review codes applicable when pathologist performs detailed review or consultation on tumor tissue selection and adequacy for molecular testing.
`81225`	EGFR (epidermal growth factor receptor) gene analysis, common variants (example somatic testing)	Representative molecular diagnostic code for targeted tumor variant testing that may be relevant in tumor profiling workflows feeding into MRD panel design.
`81455`	Cancer panel sequencing with interpretation, molecular oncology	General panel-based NGS testing code that represents broad genomic profiling often performed in parallel or prior to creation of personalized MRD assays.

Related Modifiers

8 rows

Modifier	Description	When to Use
22	Modifier –22 (Increased Procedural Services) is used when a reported procedure is substantially more extensive than normally required. The CPT Manual and CMS state it may be appended only when the…	- When to use: Append modifier -22 to a procedural CPT code when the service performed is substantially more extensive than the usual service described by that code — i.e., the procedure required…
52	Modifier ‑52 (Reduced Services) indicates that a service or procedure was partially reduced or omitted at the provider’s discretion, allowing reporting of the basic procedure number with a qualifier…	- Use modifier -52 when a physician or qualified health professional electively reduces or omits part of a procedure or service (for example, performing fewer required views or omitting a portion of…
53	Modifier 53 (Discontinued Procedure) signals that a surgical or diagnostic service was begun by the physician but terminated because of extenuating circumstances that threatened the patient’s…	- Use modifier -53 when a physician/qualified healthcare professional has started a surgical or diagnostic procedure (e.g., anesthesia administered, incision or scope insertion) and then discontinues…
59	Modifier 59 indicates a distinct procedural service when two procedures that are not normally billed together are clinically and procedurally separate. The CPT definition (as reiterated by CMS)…	- Use modifier -59 to report a distinct procedural service when documentation supports that the procedure reported is not normally billed together with another service on the same day because of a…
76	Modifier -76, Repeat Procedure or Service by Same Physician or Other Qualified Health Care Professional, is appended when the same provider performs an identical, medically necessary procedure or…	- Use modifier -76 when the same physician or other qualified health care professional performs an identical procedure or service a second (or subsequent) time on the same date of service and the…
77	Modifier 77 indicates that a previously performed procedure or service was legitimately repeated by a different physician or other qualified health care professional. The AMA’s CPT definition…	- Use modifier 77 when a basic procedure or service already performed is repeated by a different physician or other qualified health care professional (for example, a second provider independently…
90	Modifier ‑90 (Reference/Outside Laboratory) indicates that a laboratory test was performed by an entity other than the treating or reporting provider. The American Medical Association defines…	- Use CPT modifier -90 when a laboratory test is performed by an outside/reference laboratory (an entity other than the treating or reporting physician or qualified professional) and the claim needs…
91	Modifier 91 — “Repeat Clinical Diagnostic Laboratory Test” — is appended when the exact same CPT laboratory test is performed more than once for the same patient on the same day because serial,…	- Use modifier 91 when the exact same CPT laboratory test is performed more than once on the same patient on the same date because serial or repeated testing is medically necessary to monitor…

Related Provider Taxonomies

8 rows

Taxonomy Code	Specialty	Notes
207RH0000X	Hematology (Internal Medicine) Physician	An internist with additional training who specializes in diseases of the blood, spleen and lymph. This specialist treats conditions such as anemia, cl…
207VG0400X	Gynecology Physician	A physician who specializes in diagnosis, treatment, and management of patients with gynecologic conditions.
363L00000X	Nurse Practitioner	(1) A registered nurse provider with a graduate degree in nursing prepared for advanced practice involving independent and interdependent decision mak…
207K00000X	Allergy & Immunology Physician	An allergist-immunologist is trained in evaluation, physical and laboratory diagnosis, and management of disorders involving the immune system. Select…
207VB0002X	Obesity Medicine (Obstetrics & Gynecology) Physician	A physician who specializes in the treatment of obesity demonstrates competency in and a thorough understanding of the treatment of obesity and the ge…
207QA0505X	Adult Medicine Physician	The NUCC recommends this code not be used. Choose a more appropriate code.
344600000X	Taxi	A land commercial vehicle used for the transporting of persons in non-emergency situations. The vehicle meets local, county or state regulations set f…
2279P1006X	Pulmonary Function Technologist Registered Respiratory Therapist	An individual who is trained and qualified to perform pulmonary diagnostic tests. In the course of conducting these tests, the Pulmonary Function Tec…

CPT 0001U: PreciseType HEA Multiplex Erythrocyte Antigen Assay

CPT-0002U-POLYPDX-URINE-METABOLOMIC-ASSAY-ADENOMATOUS-POLYP-RISK

CPT 0002U: Urine Metabolomic Polyp Risk Assay (PolypDX™)

CPT-0003U-OVAR-A-NEXT-GENERATION-OVARIAN-CANCER-RISK-ASSAY

CPT 0003U: Overa™ (OVA1 Next Generation) Ovarian Cancer Risk Assay

CPT-0005U-PROSTATE-EXOSOMEDX-INTELLISCORE-GENE-EXPRESSION-URINE-TEST

CPT 0005U: ExosomeDx Prostate (IntelliScore) Urine Gene Expression Risk Test

CPT-0007U-TOXPROTECT-URINE-DRUG-SCREEN-WITH-DNA-AUTHENTICATION

CPT 0007U: ToxProtect Urine Drug Screen with DNA Authentication

CPT-0008U-H-PYLORI-ANTIBIOTIC-RESISTANCE-SEQUENCING-PANEL

CPT 0008U: H. pylori Antibiotic Resistance Panel, Gene Sequence Analysis

CPT-0009U-DEPARRAY-HER2-FISH-TUMOR-CELL-ISOLATION

CPT 0009U: DEPArray HER2 Tumor‑Cell Isolation with FISH Analysis

CPT-0010U-BACTERIAL-TYPING-WHOLE-GENOME-SEQUENCING-MAYO-CLINIC

CPT 0010U: Bacterial Typing by Whole Genome Sequencing, Mayo Clinic

CPT-0011U-CORDANT-CORE-ALGORITHMIC-ORAL-FLUID-DRUG-TEST

CPT 0011U: Cordant CORE™ Oral Fluid Drug Test with Algorithmic Steady‑State Comparison

CPT-0016U-BCR-ABL1-MAJOR-MINOR-FUSION-TRANSCRIPT-TESTING

CPT 0016U: BCR–ABL1 Major and Minor Breakpoint Fusion Transcript Testing

Showing 1–10 of 536

References

1.CPT® Codes and Descriptions. AAPC. Retrieved Aug 11, 2026.Maintains the CPT code set's official descriptions and guidelines, licensed from the American Medical Association, used as the definitional source for CPT codes on this page.
2.HCPCS Quarterly Update. Centers for Medicare & Medicaid Services (CMS). Retrieved Aug 11, 2026.CMS's quarterly release of HCPCS Level II codes and short/long descriptors, the source for HCPCS code definitions and update history.
3.ICD-10-CM Full Code List. Centers for Medicare & Medicaid Services (CMS). Retrieved Aug 11, 2026.CMS's complete ICD-10-CM diagnosis code list, used to cross-reference diagnosis codes associated with this procedure or service.

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Clinical & Coding Specifications

Clinical Context

Related Diagnoses

ICD-10 Code	Description	Clinical Relevance
`C80.1`	Malignant (primary) neoplasm, unspecified	Used when a specific primary site is not documented but MRD baseline testing is indicated for cancer surveillance.
`C78.7`	Secondary malignant neoplasm of liver and intrahepatic bile duct	Common metastatic site where tumor tissue may be available for sequencing to generate an MRD panel.
`C50.9`	Malignant neoplasm of breast, unspecified	Breast cancer patients often undergo tumor-informed MRD testing for post-treatment surveillance planning.
`C34.90`	Malignant neoplasm of unspecified part of bronchus or lung	Lung cancer patients may have tumor tissue profiled for personalized MRD baseline development.
`C83.90`	Non-Hodgkin lymphoma, unspecified, not having achieved remission	Hematologic malignancies are frequent indications for MRD assays to monitor residual disease after therapy.

Related CPT Codes

CPT Code	Description	Relationship to This Procedure
`0560U`	Haystack MRD™ Baseline — genomic sequence analysis of tumor tissue and whole blood to create a personalized variant panel for MRD detection	Primary PLA code to report this specific baseline MRD assay performed by Quest Diagnostics®.
`88184`	Morphometric analysis, quantitative; manual or computer-assisted (e.g., immunohistochemistry image analysis)	May be performed on tumor tissue to quantify tumor content prior to sequencing and to support adequacy of the tissue specimen used for panel design.
`88360`	Surgical pathology, gross and microscopic examination with consultation for complex cases (example; consultative interpretation)	Pathology review codes applicable when pathologist performs detailed review or consultation on tumor tissue selection and adequacy for molecular testing.
`81225`	EGFR (epidermal growth factor receptor) gene analysis, common variants (example somatic testing)	Representative molecular diagnostic code for targeted tumor variant testing that may be relevant in tumor profiling workflows feeding into MRD panel design.
`81455`	Cancer panel sequencing with interpretation, molecular oncology	General panel-based NGS testing code that represents broad genomic profiling often performed in parallel or prior to creation of personalized MRD assays.

Related Modifiers

8 rows

Modifier	Description	When to Use
22	Modifier –22 (Increased Procedural Services) is used when a reported procedure is substantially more extensive than normally required. The CPT Manual and CMS state it may be appended only when the…	- When to use: Append modifier -22 to a procedural CPT code when the service performed is substantially more extensive than the usual service described by that code — i.e., the procedure required…
52	Modifier ‑52 (Reduced Services) indicates that a service or procedure was partially reduced or omitted at the provider’s discretion, allowing reporting of the basic procedure number with a qualifier…	- Use modifier -52 when a physician or qualified health professional electively reduces or omits part of a procedure or service (for example, performing fewer required views or omitting a portion of…
53	Modifier 53 (Discontinued Procedure) signals that a surgical or diagnostic service was begun by the physician but terminated because of extenuating circumstances that threatened the patient’s…	- Use modifier -53 when a physician/qualified healthcare professional has started a surgical or diagnostic procedure (e.g., anesthesia administered, incision or scope insertion) and then discontinues…
59	Modifier 59 indicates a distinct procedural service when two procedures that are not normally billed together are clinically and procedurally separate. The CPT definition (as reiterated by CMS)…	- Use modifier -59 to report a distinct procedural service when documentation supports that the procedure reported is not normally billed together with another service on the same day because of a…
76	Modifier -76, Repeat Procedure or Service by Same Physician or Other Qualified Health Care Professional, is appended when the same provider performs an identical, medically necessary procedure or…	- Use modifier -76 when the same physician or other qualified health care professional performs an identical procedure or service a second (or subsequent) time on the same date of service and the…
77	Modifier 77 indicates that a previously performed procedure or service was legitimately repeated by a different physician or other qualified health care professional. The AMA’s CPT definition…	- Use modifier 77 when a basic procedure or service already performed is repeated by a different physician or other qualified health care professional (for example, a second provider independently…
90	Modifier ‑90 (Reference/Outside Laboratory) indicates that a laboratory test was performed by an entity other than the treating or reporting provider. The American Medical Association defines…	- Use CPT modifier -90 when a laboratory test is performed by an outside/reference laboratory (an entity other than the treating or reporting physician or qualified professional) and the claim needs…
91	Modifier 91 — “Repeat Clinical Diagnostic Laboratory Test” — is appended when the exact same CPT laboratory test is performed more than once for the same patient on the same day because serial,…	- Use modifier 91 when the exact same CPT laboratory test is performed more than once on the same patient on the same date because serial or repeated testing is medically necessary to monitor…

Related Provider Taxonomies

8 rows

Taxonomy Code	Specialty	Notes
207RH0000X	Hematology (Internal Medicine) Physician	An internist with additional training who specializes in diseases of the blood, spleen and lymph. This specialist treats conditions such as anemia, cl…
207VG0400X	Gynecology Physician	A physician who specializes in diagnosis, treatment, and management of patients with gynecologic conditions.
363L00000X	Nurse Practitioner	(1) A registered nurse provider with a graduate degree in nursing prepared for advanced practice involving independent and interdependent decision mak…
207K00000X	Allergy & Immunology Physician	An allergist-immunologist is trained in evaluation, physical and laboratory diagnosis, and management of disorders involving the immune system. Select…
207VB0002X	Obesity Medicine (Obstetrics & Gynecology) Physician	A physician who specializes in the treatment of obesity demonstrates competency in and a thorough understanding of the treatment of obesity and the ge…
207QA0505X	Adult Medicine Physician	The NUCC recommends this code not be used. Choose a more appropriate code.
344600000X	Taxi	A land commercial vehicle used for the transporting of persons in non-emergency situations. The vehicle meets local, county or state regulations set f…
2279P1006X	Pulmonary Function Technologist Registered Respiratory Therapist	An individual who is trained and qualified to perform pulmonary diagnostic tests. In the course of conducting these tests, the Pulmonary Function Tec…

CPT 0001U: PreciseType HEA Multiplex Erythrocyte Antigen Assay

CPT-0002U-POLYPDX-URINE-METABOLOMIC-ASSAY-ADENOMATOUS-POLYP-RISK

CPT 0002U: Urine Metabolomic Polyp Risk Assay (PolypDX™)

CPT-0003U-OVAR-A-NEXT-GENERATION-OVARIAN-CANCER-RISK-ASSAY

CPT 0003U: Overa™ (OVA1 Next Generation) Ovarian Cancer Risk Assay

CPT-0005U-PROSTATE-EXOSOMEDX-INTELLISCORE-GENE-EXPRESSION-URINE-TEST

CPT 0005U: ExosomeDx Prostate (IntelliScore) Urine Gene Expression Risk Test

CPT-0007U-TOXPROTECT-URINE-DRUG-SCREEN-WITH-DNA-AUTHENTICATION

CPT 0007U: ToxProtect Urine Drug Screen with DNA Authentication

CPT-0008U-H-PYLORI-ANTIBIOTIC-RESISTANCE-SEQUENCING-PANEL

CPT 0008U: H. pylori Antibiotic Resistance Panel, Gene Sequence Analysis

CPT-0009U-DEPARRAY-HER2-FISH-TUMOR-CELL-ISOLATION

CPT 0009U: DEPArray HER2 Tumor‑Cell Isolation with FISH Analysis

CPT-0010U-BACTERIAL-TYPING-WHOLE-GENOME-SEQUENCING-MAYO-CLINIC

CPT 0010U: Bacterial Typing by Whole Genome Sequencing, Mayo Clinic

CPT-0011U-CORDANT-CORE-ALGORITHMIC-ORAL-FLUID-DRUG-TEST

CPT 0011U: Cordant CORE™ Oral Fluid Drug Test with Algorithmic Steady‑State Comparison

CPT-0016U-BCR-ABL1-MAJOR-MINOR-FUSION-TRANSCRIPT-TESTING

CPT 0016U: BCR–ABL1 Major and Minor Breakpoint Fusion Transcript Testing

Showing 1–10 of 536

References

1.CPT® Codes and Descriptions. AAPC. Retrieved Aug 11, 2026.Maintains the CPT code set's official descriptions and guidelines, licensed from the American Medical Association, used as the definitional source for CPT codes on this page.
2.HCPCS Quarterly Update. Centers for Medicare & Medicaid Services (CMS). Retrieved Aug 11, 2026.CMS's quarterly release of HCPCS Level II codes and short/long descriptors, the source for HCPCS code definitions and update history.
3.ICD-10-CM Full Code List. Centers for Medicare & Medicaid Services (CMS). Retrieved Aug 11, 2026.CMS's complete ICD-10-CM diagnosis code list, used to cross-reference diagnosis codes associated with this procedure or service.

Published by

Trek Health powers OpenPayer with a leading commercial payer intelligence platform, seamlessly converting fragmented payer data into actionable insights for provider organizations.

OpenPayer

CPT 0560U: Haystack MRD™ Baseline Genomic Variant Panel

Sign up for cpt 0560U policy alerts

Billing Code Overview

OpenPayer

CPT 0560U: Haystack MRD™ Baseline Genomic Variant Panel

Sign up for cpt 0560U policy alerts

Billing Code Overview

Clinical & Coding Specifications

Clinical Context

Related Diagnoses

Related CPT Codes

Related Modifiers

Related Provider Taxonomies

Related Codes

References

Clinical & Coding Specifications

Clinical Context

Related Diagnoses

Related CPT Codes

Related Modifiers

Related Provider Taxonomies

Related Codes

References