From: Small extrachromosomal circular DNA (eccDNA): major functions in evolution and cancer
Methods | Description | Advantage or Limitation | References |
---|---|---|---|
Electron microscopy | Localization, identification, quantification | No sequence information | [9] |
Karyotype | Localization, identification, quantification | No sequence information | [7] |
2D gel electrophoresis | Identification | No sequence information | |
Southern blotting | Quantification | Little sequence information | [98] |
Inverse PCR | Quantification, identification | Little but useful sequence information | |
FISH | Localization, identification, quantification | Little sequence information | |
Density gradient centrifugation | Isolation and purification | Laborious | [47] |
Methods based on next-generation sequencing | Localization, quantification, high resolution, (1) tagmentation method is more sensitive than (2) nuclease digestion (Msp); (3) exonuclease III digestion; (4) exonuclease V digestion; (5) rolling-amplification | High throughput, high resolution, sensitive, expensive |