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Table 1 Comparison of overlap between alterations.

From: rSW-seq: Algorithm for detection of copy number alterations in deep sequencing data

 

Ratio

Method

HCC1143

HCC1954

H2347

Concordance rate (%)a

>1.5

rSW-seq

94.2

90.9

97.4

  

SegSeq

83.6

79.7

99.5

 

<0.5

rSW-seq

93.0

97.1

98.6

  

SegSeq

91.0

93.2

93.8

Concordance rate vs array-based profile (%)b

>1.5

rSW-seq

96.8

96.4

70.0

  

SegSeq

95.4

94.6

26.3

 

<0.5

rSW-seq

83.9

57.2

42.4

  

SegSeq

76.9

57.8

33.5

  1. aConcordance rate was measured between the results of rSW-seq and SegSeq, and is defined as (overlapping region between two methods in bp)/(total regions identified by either rSW-seq or Segseq in bp). bConcordance rate is (overlapping region between array-based and sequencing based in bp)/(regions identified by array-based or sequencing-based in bp).