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Table 1 Deep-sequencing statistics for the 15-pg DNA and single-cell samples amplified by different kits

From: Preimplantation genetic diagnosis and screening (PGD/S) using a semiconductor sequencing platform

Base index

Sample types

Kits (mean ± SD)

Kits (no. of samples)

SurePlex

DOP-PCR

SurePlex

DOP-PCR

GC content

 

0.448 ± 0.004

0.414 ± 0.006

26

66

CV(1 Mb)

15 pg DNA

0.133 ± 0.01

0.11 ± 0.014

12

25

Single-cell DNA

0.117 ± 0.012

0.094 ± 0.013

3

4

Duplication ratio

15 pg DNA

0.187 ± 0.039

0.199 ± 0.059

12

25

Single-cell DNA

0.185 ± 0.052

0.185 ± 0.05

3

4

Unique mapped reads ratio

15 pg DNA

0.517 ± 0.01

0.515 ± 0.057

12

25

Single-cell DNA

0.523 ± 0.061

0.479 ± 0.023

3

4

Unique mapped reads number

15 pg DNA

4,137,564 ± 517,233

3,953,195 ± 650,395

12

25

Single-cell DNA

2,883,315 ± 241,218

3,574,140 ± 797,115

3

4

Theory coverage

15 pg DNA

0.215 ± 0.025

0.194 ± 0.034

12

25

Single-cell DNA

0.162 ± 0.015

0.179 ± 0.036

3

4

Actual coverage

15 pg DNA

0.133 ± 0.012

0.102 ± 0.018

12

25

Single-cell DNA

0.108 ± 0.008

0.096 ± 0.017

3

4

Minus of theory and actual

15 pg DNA

0.082 ± 0.02

0.091 ± 0.033

12

25

Single-cell DNA

0.054 ± 0.008

0.083 ± 0.025

3

4