Studying Biomarkers in Samples From Younger Patients With Malignant Germ Cell Tumor Progression

Children's Oncology Group

Status: Completed

Conditions: Extragonadal Germ Cell Tumor; Childhood Germ Cell Tumor; Ovarian Cancer; Testicular Germ Cell Tumor

Treatments: Genetic: RNA analysis; Genetic: polymerase chain reaction; Genetic: nucleic acid sequencing; Genetic: polymorphism analysis; Genetic: DNA methylation analysis; Genetic: mutation analysis; Other: medical chart review; Other: laboratory biomarker analysis

Study type: Observational

Funder types: NETWORK; NIH

Identifiers

NCT01433224

AGCT11B2 (Other Identifier)

COG-AGCT11B2 (Other Identifier)

NCI-2011-03456 (Registry Identifier)

Details and patient eligibility

About

RATIONALE: Studying samples of blood and tissue from patients with cancer in the laboratory may help doctors learn more about changes that occur in DNA and identify biomarkers related to cancer. It may also help doctors find better ways to treat cancer.

PURPOSE: This research trial studies samples from younger patients with malignant germ cell tumor progression.

Full description

OBJECTIVES:

• Explore inter-tumoral heterogeneity in DNA methylation by tumor histology.
• Determine the genomic methylation pattern in the tumors.
• Correlate methylation pattern with tumor histology and clinical characteristics.
• Carry out exome capture and massively parallel sequencing on selected germ cell tumors (GCTs) and matched normal tissue.
• Perform exome capture and Solexa sequencing on a selected set of GCTs.
• Validate candidate mutations in an independent set of tumors.
• Determine the expression profile of mRNAs, lincRNAs and microRNAs in the tumors using RNA Seq.

OUTLINE: Archived blood and tumor tissue samples are analyzed for genomic methylation pattern, exome capture and sequencing, and candidate mutations by methylation-specific PCR techniques, single nucleotide polymorphism (SNP) arrays, and Solexa sequencing methods. Results are validated by using pyrosequencing assays and primer-extension assays. Methylation pattern is also associated with each patient's tumor histology and clinical data.

Enrollment: 90 estimated patients

Sex: All

Volunteers: No Healthy Volunteers

Inclusion and exclusion criteria

DISEASE CHARACTERISTICS:

• Tumor and blood specimens from patients registered on the Children Oncology Group (COG) Germ Cell Tumor Protocols, and from other study sites for non-COG patients, including Children's Medical Center, Dallas and the Dana-Farber Cancer Institute, Boston
• Patients' clinical data

PATIENT CHARACTERISTICS:

• Not specified

PRIOR CONCURRENT THERAPY:

• Not specified