Comparing genome results from 23andMe and deCODEme

 

Antonio C B Oliveira

acbolive at sloan.mit.edu

 

April 2008

 

 

In order to determine the accuracy of the genome profile provided by 23andMe and deCODEme I arranged to be genotyped by both companies and wrote a computer program to compare the results.

The downloaded files contains 576105 snips in the case of 23andMe and 1013349 snips for deCODE.  After removing the no-call and matching the two files by SNP identification, 560299 snips were present in both files. The comparisson revealed 23 cases in which the results do not agree. The discrepancy by chromosome is summarized in the following table.

 

 

Chrm

equal

not equal

1

42060

2

rs4660646

rs1934496

2

45328

1

rs10933181

3

37637

1

rs9881405

4

33557

3

rs1064205

rs312330

rs11100437

5

34530

0

6

36742

1

rs4458717

7

30199

0

8

31736

1

rs2955195

9

26745

3

rs7033246

rs1536928

rs10793963

10

29187

0

11

27367

3

rs10894749

rs3921012

rs510978

12

27092

1

rs12296276

13

20766

0

14

18356

0

15

16630

2

rs754499

rs4965862

16

16863

1

rs11149566

17

14391

1

rs2290505

18

16799

1

rs12960185

19

9512

0

20

14240

1

rs4814138

21

8193

0

22

8443

0

MT

0

0

X

13793

1

rs6615048

Y

110

0

Total

560276

23

 

This error rate seems to me to be quite acceptable and I wonder if this is the rate expected in scientific studies using the same technology. 

 

 www.barbosadeoliveira.com/comparing