ecDNA-seq
ecDNA-seq
Extrachromosomal DNA Sequencing
Extrachromosomal DNA (ecDNA) denotes circular DNA molecules that exist autonomously from chromosomes. These molecules frequently bear crucial oncogenes and other regulatory elements, such as enhancers, and are extensively present in diverse cancers and diseases. EcDNA is intricately associated with tumor heterogeneity, drug resistance, and unfavorable prognosis. EPIBIOTEK® provides WGS-based ecDNA sequencing services to facilitate the advancement of research and clinical breakthroughs in the investigation of complex diseases, including cancer.
Applications
1. Investigating the Biological Roles of ecDNA:
Study its involvement in genomic instability, epigenetic regulation, and intercellular communication.
2. Analyzing Tumor Heterogeneity and Evolution:
Examine the evolution of tumors and their genetic diversity.
3. Exploring the Role of ecDNA in Oncogene Amplification and Drug Resistance:
Understand how ecDNA contributes to the amplification of oncogenes and drug resistance.
4. Developing EcDNA-Based Approaches for Targeted Therapies:
Explore applications in personalized medicine, targeted therapies, and prognostic evaluation.
Advantages
1. High Sensitivity and Specificity:
Precisely distinguish ecDNA from chromosomal DNA, minimizing background interference.
2. Comprehensive EcDNA Analysis:
Detailed examination of the circular structure, breakpoints, and copy number variations of ecDNA.
3. Identification of Oncogenes or Key Genes:
Investigate potential oncogenes or other critical genes associated with ecDNA.
Sample Requirements
Whole blood
≥1.5 mL/sample
Cells
≥1x10⁴ cells/sample
Tissue
≥10 mg/sample
Bioinformatic Analysis
1. Sequencing Quality Assessment
2. Reference Genome Alignment
3. Whole Genome Analysis
·Local Re-Alignment
·Sequencing Coverage Analysis
·Base Correction
·Somatic Mutation Detection
·Structural Variation Detection
·Copy Number Variation Analysis
·Variant Effect Prediction
4. ecDNA Detection and Analysis
·ecDNA Detection
·Copy Number Analysis
·Circular Structure Construction
·Genome Annotation
Demo
Amplified Element Structure
Genome Coverage
Integration of Amplified Circular Structure
Copy Number Variation Scatter Plot