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Table 1 Detection of the derivative chromosomes in single S- and G0/G1 cells of three cell lines

From: Single cell segmental aneuploidy detection is compromised by S phase

A

 

dup(7p) 25.16 Mb (40 probes)

 

dup(9p) 24 Mb (42 probes)

del(18p) 8 Mb (28 probes)

 

dup(18p) 9.3 Mb (30 probes)

del(20p)a1.7 Mb (8 probes)

S_1_1

25

S_2_1

26

3a

S_3_1

7

7

S_1_2

11

S_2_2

21

13

S_3_2

14

7

S_1_3

13

S_2_3

19

21

S_3_3

4a

6

S_1_4

18

S_2_4

29

20

S_3_4

16

7

S_1_5

8a

S_2_5

22

25

S_3_5

11

6

S_1_6

9a

S_2_6

25

18

S_3_6

13

8

S_1_7

18

S_2_7

28

21

   

S_1_8

13

S_2_8

27

22

   

S_1_9

10a

S_2_9

18

24

   

S_1_10

27

S_2_10

31

22

   

G0/G1_1_1

23

G0/G1_2_1

16

13

G0/G1_3_1

2a

7

G0/G1_1_2

20

G0/G1_2_2

19

17

G0/G1_3_2

17

6

G0/G1_1_3

18

G0/G1_2_3

25

19

G0/G1_3_3

15

7

G0/G1_1_4

28

G0/G1_2_4

36

23

G0/G1_3_4

19

5

G0/G1_1_5

24

G0/G1_2_5

31

17

G0/G1_3_5

17

6

G0/G1_1_6

20

G0/G1_2_6

23

20

G0/G1_3_6

17

7

G0/G1_1_7

25

G0/G1_2_7

22

20

G0/G1_3_7

23

4

  

G0/G1_2_8

31

19

   

B

       
 

Underestimation b

No call a

Total number of false negative

Total number of false positive

Total number of cells

S

14

3

17

5c

26

G0/G1

3

1

4

0

22

  1. (A) Number of probes indicating the presence of an imbalance in the regions of interest according to the BAC array log2 intensity ratios of single cells per cell phase and cell line. In brackets the number of probes in the regions of interest. The number of probes indicating the presence of the imbalance of interest was significantly higher in G0/G1- compared to S-phase cells (Mann Whitney p = 0.029). (B) Total number of miss-calls per cell cycle phase. The accurate imbalance detection rate is significantly higher in G0/G1- compared to S-phase cells (Chi-square test p = 0.001).
  2. aThe imbalance was not automatically indicated by the software.
  3. bThe proximal or distal end of the imbalance was very weakly detected or not detected at all.
  4. cThe log2 intensity ratios for 1 cell were indicative of a deletion in the control sample, while there is a duplication in the same region in the cell line of interest.