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RecruitingNCT06606028Updated Dec 12, 2025

Tumor-Informed ctDNA Testing for MRD Following Treatment of Squamous Cell Carcinoma

An observational study in Squamous Cell Carcinoma of Head and Neck, Squamous Cell Carcinoma Head and Neck Cancer (HNSCC) and Squamous Cell Carcinoma of Skin, sponsored by University of California, San Francisco. Recruiting at 1 site in United States. Open to participants aged 18 Years and older. Per ClinicalTrials.gov, last updated 2025-12-12.

Sponsored by University of California, San Francisco · Observational

From the registry’s dates

  • Started Oct 2024; still recruiting 1 year 11 months later.
Study type
Observational
Model
Cohort
Time perspective
Prospective
Enrollment
250
Ages
18 Years and older
Sex
All
01

Study summary

This is a single-center, non-interventional, observational study that evaluates the correlation of circulating tumor DNA (ctDNA) testing to cancer relapse for participants with squamous cell carcinomas (HNC) of the head and neck mucosa and skin after curative-intent primary radiation or surgery.

Read the detailed description

PRIMARY OBJECTIVE:

I. To determine the rates of detectable ctDNA within two years of participants treated with curative-intent surgery or radiation-based treatment for HNC.

SECONDARY OBJECTIVES:

  1. To describe the prevalence of detectable ctDNA at initial diagnosis in participants with HNC.
  2. To describe the association of quantitative ctDNA levels with time-to-event outcomes (overall survival (OS), disease-free survival (DFS), and time to recurrence (TTR)).
  3. To describe the association of quantitative ctDNA levels with follow-up imaging tumor volume.

OUTLINE:

Participants will have tissue samples collected at screening and blood samples collected for analysis before, during, and after non-investigational, standard of care treatment for cancer for up to 2 years

02

Conditions studied

  • Squamous Cell Carcinoma of Head and Neck
  • Squamous Cell Carcinoma Head and Neck Cancer (HNSCC)
  • Squamous Cell Carcinoma of Skin
  • Cutaneous Squamous Cell Carcinoma (CSCC)

Keywords

  • ctDNA
03

In context

Squamous Cell Carcinoma of Head and Neck

1,680 studies on the registry are indexed under Squamous Cell Carcinoma of Head and Neck; 539 are open to participants now.

This study's planned enrollment of 250 is above the median of 100 across 179 observational studies indexed under Squamous Cell Carcinoma of Head and Neck.

Browse Squamous Cell Carcinoma of Head and Neck studies →

Lead sponsor

University of California, San Francisco is the lead sponsor of 2,132 studies on the registry; 375 are open to participants now.

Of its 262 completed or terminated interventional studies of FDA-regulated products, 196 (75%) have results posted.

Counted across the registry records on this site, refreshed daily.

04

Who can participate

Ages eligible
18 Years and older
Sexes eligible
All
Accepts healthy volunteers
No
Sampling method
Non-probability sample

Study population

Adult participants with squamous cell carcinoma of the head and neck mucosa and skin.

Inclusion criteria

  1. Participants must have histologically or cytologically confirmed squamous cell carcinoma of the head and neck mucosa and skin.
  2. Participants must be age >=18 years.
  3. Participants must be planning to receive curative-intent surgery or radiation-based treatment as part of standard of care treatment.
  4. Participants must have the ability to understand and the willingness to sign a written informed consent document.

Exclusion criteria

Exclusion Criteria:

1. Contraindication to phlebotomy for removal of 20 mL of peripheral blood each time point (up to 300 mL total over 15 time points).

05

Study design

Observational model
Cohort
Time perspective
Prospective
Enrollment
250 participants (estimated)
Patient registry
No
Biospecimen retention
Samples with dna

Groups and cohorts

  • Cohort A: Non-investigational Radiation therapy

    Participants will have tumor tissue collected at screening and blood samples (approximately 20ml x 3) will be obtained during non-investigational, standard of care radiation and after care for up to 2 years.

    Procedure: Blood Specimen Collection · Procedure: Tumor Tissue Collection · Other: Medical Record Review

  • Cohort B: Non-investigational Surgery

    Participants will have tumor tissue collected at screening and blood samples (approximately 20ml x 3) will be obtained during non-investigational, standard of care surgery and after care for up to 2 years.

    Procedure: Blood Specimen Collection · Procedure: Tumor Tissue Collection · Other: Medical Record Review

Interventions

  • ProcedureBlood Specimen Collection

    Approximately 20 mL of peripheral blood (10 mL per tube, x 3 Streck tubes) will be drawn at each time point

    Also known as: Blood Specimen, Biospecimen collection

  • ProcedureTumor Tissue Collection

    Formalin-fixed paraffin embedded tumor tissue samples (tissue blocks of 12 x 10 millimeter (mm) unstained slides) derived from biopsy or surgical resection will be collected at screening

    Also known as: Tissue Specimen, Biospecimen collection

  • OtherMedical Record Review

    Medical records will be reviewed to collect standard of care p16 staining by immunohistochemistry and/or high-risk human papillomavirus (HPV) DNA or RNA testing that is performed as part of standard of care

    Also known as: Chart Review

06

What researchers measure

Primary outcomes

  1. Cumulative incidence rate of ctDNA

    Cumulative incidence will be estimated by evaluating the cumulative incidence of positive ctDNA (non-zero) with death as a competing risk.

    Time frame: Up to 2 years

Secondary outcomes

  1. Proportion of participants at diagnosis with a positive (non-zero) ctDNA result.

    The prevalence of detectable ctDNA at initial diagnosis in participants with locally-advanced head and neck cancer will be reported as the proportion of participants at diagnosis with a positive (non-zero) ctDNA result.

    Time frame: Up to 2 years

  2. Association of association of quantitative ctDNA levels with overall survival (OS)

    The Spearman's correlation coefficient (rs) measures the strength and direction of association between two variables. The Spearman correlation coefficient, rs, can take values from +1 to -1 where a value of +1 indicates a perfect association, an rs of 0 indicates no association and an rs of -1 indicates a perfect negative association. The closer rs is to 0, the weaker the association. This correlation will be used to determine the association of quantitative ctDNA levels with overall survival (OS).

    Time frame: Up to 2 years

  3. Association of association of quantitative ctDNA levels with disease-free survival (DFS)

    The Spearman's correlation coefficient (rs) measures the strength and direction of association between two variables. The Spearman correlation coefficient, rs, can take values from +1 to -1 where a value of +1 indicates a perfect association, an rs of 0 indicates no association and an rs of -1 indicates a perfect negative association. The closer rs is to 0, the weaker the association. This correlation will be used to determine the association of quantitative ctDNA levels with overall survival (OS).

    Time frame: Up to 2 years

  4. Association of association of quantitative ctDNA levels with time to recurrence (TTR)

    The Pearson correlation coefficient (r) measures the strength and direction of association between two variables. The Pearson correlation coefficient (r) can take values from +1 to -1 where a value of +1 indicates a perfect association, a value of 0 indicates no association, and a value of -1 indicates a perfect negative association. The closer r is to 0, the weaker the association. This correlation will be used to determine the association of quantitative ctDNA levels with TTR.

    Time frame: Up to 2 years

  5. Association of quantitative ctDNA levels with follow-up imaging tumor volume.

    The Pearson correlation coefficient (r) measures the strength and direction of association between two variables. The Pearson correlation coefficient (r) can take values from +1 to -1 where a value of +1 indicates a perfect association, a value of 0 indicates no association, and a value of -1 indicates a perfect negative association. The closer r is to 0, the weaker the association. This correlation will be used to determine the association of quantitative ctDNA levels with tumor volume.

    Time frame: Up to 2 years

07

Study locations

1 of 1 sites recruiting
  • University of California, San Francisco
    San Francisco, California 94143, United States
    • Sonia Contreras Martinez · Contact · 415-514-6427
    • sonia.contrerasmartinez@ucsf.edu · Contact · cancertrials@ucsf.edu · 877-827-3222
    • Jason W Chan, MD · Principal investigator
    Recruiting
08

References and documents

Individual participant data

Plan to share: No — De-identified laboratory data will be shared with industry collaborators on this study only

No publications or documents are linked to this record.

09

Updates

Tracking since Sep 25, 2026
No changes since tracking began. The registry record was last updated on Dec 12, 2025, before this site started recording changes on Sep 25, 2026. Its history is on ClinicalTrials.gov ↗
10

Registry details

Key details

Study ID
NCT06606028
Lead sponsor
University of California, San Francisco
Collaborators
Haystack Oncology, Inc.
Responsible party
Sponsor
First posted
Sep 20, 2024
Start date
Oct 9, 2024
Primary completion
Dec 30, 2028 (estimated)
Completion
Dec 30, 2029 (estimated)
Last update
Dec 12, 2025

Study contacts

Sonia Contreras Martinez
Contact
sonia.contrerasmartinez@ucsf.edu
415-514-6427
Jason W Chan, MD
principal investigator · University of California, San Francisco

Oversight

Data monitoring committee
Yes
FDA-regulated drug
No
FDA-regulated device
No
View the source record on ClinicalTrials.gov ↗

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