Table 2.
Summary of data before and after quality control.
| Study | Before QC | After QC | |||
|---|---|---|---|---|---|
|
|
|
||||
| #Individuals | #SNP | #Individuals | #Females (%) | ||
| EGOS, cases | 1108 | 759993 | 1066 | 667 | (63%) |
| NORDiC, cases | 1107 | 759993 | 1024 | 596 | (58%) |
| LifeGene-EGOS, controls | 1444 | 759993 | 1238 | 452 | (36%) |
| LifeGene-ANGI-Wave-1, controls | 1500 | 688032 | 1432 | 1378 | (96%) |
| LifeGene-ANGI-Wave-2, controls | 1500 | 688032 | 1442 | 1432 | (99%) |
| LifeGene-NORDiC, controls | 500 | 759993 | 455 | 228 | (50%) |
|
| |||||
| Total (merged) 1 | 7059 | 6657 | 4753 | (71%) | |
| Cases | 2115 | 2090 | 1263 | (60%) | |
| Controls | 4944 | 4567 | 3490 | (76%) | |
1
After QC, the final data had 412813 SNP, 406120 on autosomes