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Table 1 Comparison of whole-genome amplification methods for single-cell DNA sequencing.

From: Single-cell sequencing and tumorigenesis: improved understanding of tumor evolution and metastasis

Method

Enzyme used

Application

Genome coverage

SNV detection

CNV detection

Amplification bias

DOP-PCR

Taq DNA polymerase

Single nucleus sequencing

Low (~10%)

High false negative and false positive rates

Useful

High (102–106 fold)

MDA

φ29 DNA polymerase; Bst DNA polymerase

Single nucleus exome sequencing

Moderate (>70%)

Useful but has a high false negative rate due to amplification bias

Not accurate

Moderate (3- to 4-fold)

MALBAC

Bst DNA polymerase

Single-cell genome/exome sequencing

High (>90%)

High false positive rate due to low fidelity

Accurate

Low

  1. SNV single nucleotide variant, CNV copy number variant, DOP-PCR degenerate oligonucleotide-primed polymerase chain reaction, MDA multiple-displacement amplification, MALBAC multiple annealing and looping based amplification cycles