Identification of Prognostic Biomarkers for Progression of Invasive Squamous Cell Carcinoma

Mayo Clinic

Status: Terminated

Conditions: Lung Neoplasms; Carcinoma, Squamous Cell; Squamous Cell Carcinoma; Neoplasms, Pulmonary; Cancer of the Lung; Cancer of Lung; Neoplasms, Lung; Pulmonary Cancer; Pulmonary Neoplasms; Carcinoma, Squamous; Lung Cancer

Treatments: Genetic: DNA Extraction

Study type: Observational

Funder types: Other

Identifiers

NCT02549638

15-000548

Details and patient eligibility

About

The study will utilize both retrospective and prospective data collection from patients that already had a bronchoscopy and lung resection or will have a bronchoscopy and lung resection for squamous cell carcinoma. The investigators plan to prospectively collect 5 bronchoscopic biopsies, 10ml blood and one tumor and adjacent normal samples from 200 qualified patients who meet the study criteria.

Full description

The study will utilize both retrospective and prospective data collection from patients that have already had a bronchoscopy and lung resection or will have a bronchoscopy and lung resection for squamous cell carcinoma. The investigators plan to prospectively collect 5 bronchoscopic biopsies, 10ml blood and one tumor and adjacent normal samples from 200 qualified patients who meet the study criteria. If a patient has already had a bronchoscopy and has consented to have samples stored for research at the Mayo Clinic Rochester we will access them for the research study if available. Otherwise, if the patient has already had surgery and tissue has not been stored for research the investigators will consent patients to use their clinical specimens for the research study. The investigators will then extract DNA from tissue sections and blood and use a custom targeted sequencing panel of 23 cancer driver genes with significant mutations in squamous cell carcinoma that they have developed to find the prognostic biomarkers. The DNA will be used in a PCR reaction to generate amplicons for library preparation using Illumina Nextera XT library preparation protocol and targeted sequencing on the Illumina Hiseq sequencer. The reads will be aligned to the HG19 using BWA aligner and variant detection performed with Agilent SureCall and GATK analytic tools.

Enrollment: 22 patients

Sex: All

Ages: 18+ years old

Volunteers: No Healthy Volunteers

Inclusion criteria

• known or suspected squamous cell carcinoma of the lung
• able to provide consent
• could have already had a bronchoscopy or surgical resection with tissue saved at the Mayo Clinic Rochester
• will be undergoing a bronchoscopy and having a surgical resection at the Mayo Clinic Rochester

Exclusion criteria

• unable to provide consent
• pregnant

Trial design

22 participants in 1 patient group

Tissue Collection

Description:

We plan to prospectively collect 5 bronchoscopic biopsies, 3ml blood and one tumor and adjacent normal samples from 200 qualified patients who meet the study criteria. If a patient has already had a bronchoscopy and has samples available that were previously collected and stored for research at the Mayo Clinic we will use those samples.

Treatment:

Genetic: DNA Extraction